[{"hash":"1946239662742068335","title":"Developmental transcription and calcium signaling","description":"The cluster is dominated by transcription-related GO terms (RNA polymerase II\u2013driven transcription, DNA-templated transcription) paired with several development-associated processes (osteoblast differentiation, fat cell differentiation, outflow tract morphogenesis, ring gland development). The presence of cellular responses to calcium ions suggests calcium signaling links these programs. Immune-related terms (IL-4 response, MHC class II biosynthesis) appear, indicating broader signaling roles, but the overall theme still points to transcription-regulated development with calcium signaling.","confidence":"Medium","size":29,"edges":397,"triangles":3424,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045669","count":15},{"id":"GO:0006366","count":15},{"id":"GO:0006351","count":14},{"id":"GO:0071277","count":14},{"id":"GO:0003151","count":14}]},{"hash":"371314190297351192","title":"Embryogenesis and Organ Development","description":"Most of the top GO terms refer to embryonic development and organogenesis (placental development, endocardial cushion formation via EMT, left-right patterning, cartilage morphogenesis, pancreatic and endocrine system development). This suggests the cluster comprises proteins involved in early development and tissue differentiation rather than a single pathway, hence the label Embryogenesis and Organ Development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":28},{"id":"GO:0003198","count":28},{"id":"GO:0060972","count":28},{"id":"GO:0060536","count":28},{"id":"GO:0003323","count":28}]},{"hash":"1163792764621238777","title":"Innate immunity and angiogenesis with ECM remodeling","description":"This cluster is enriched for innate immune processes (innate immune response, complement activation) and vascular/ECM remodeling activities (sprouting angiogenesis, endothelial cell migration, collagen fibril organization, integrin signaling, tight junction assembly). The overlap suggests immune\u2013vascular\u2013extracellular matrix crosstalk during tissue remodeling, making \"Innate immunity and angiogenesis with ECM remodeling\" a representative label.","confidence":"Medium","size":29,"edges":56,"triangles":20,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0006958","count":10},{"id":"GO:2000329","count":9},{"id":"GO:1904274","count":9},{"id":"GO:0030199","count":9}]},{"hash":"2226333286913156213","title":"Embryonic Development and Organogenesis","description":"The top GO terms point to broad developmental processes across multiple tissues, including primitive streak formation, heart and limb development, inner ear and gonad development, neural development, and hematopoietic differentiation, indicating a cluster of genes involved in embryonic patterning and organ formation rather than a single pathway.","confidence":"High","size":29,"edges":17,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0008584","count":7}]},{"hash":"1713340183752039054","title":"Developmental regulation and organ morphogenesis","description":"The cluster contains multiple development-associated GO terms across diverse tissues (heart, brain, eye, gonad, prostate) and stages (embryonic development, organ morphogenesis, multicellular growth), along with transcriptional regulation (negative regulation of transcription by RNA Pol II and DNA-templated transcription). This suggests a coherent theme of broad developmental programs and tissue differentiation rather than a single organ-specific function.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0055114","count":4}]},{"hash":"24479290368546871","title":"Ubiquitin-mediated proteolysis and ECM remodeling","description":"The cluster is dominated by ubiquitin-related terms (ubiquitin-dependent protein catabolic process and various deubiquitination activities) and includes collagen fibril organization, fibrinolysis, and blood coagulation, suggesting a core function in ubiquitin-regulated protein turnover intertwined with extracellular matrix and vascular remodeling processes.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006511","count":5},{"id":"GO:0035871","count":5},{"id":"GO:0071108","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0042730","count":4}]},{"hash":"101379674067330918","title":"Adhesion-driven morphogenesis and tissue patterning","description":"The top GO terms point to cell adhesion mechanisms (hemidesmosome assembly, substrate adhesion, heterophilic adhesion) together with tissue morphogenesis and patterning (planar hair orientation, tracheal and lung branching, trunk growth), plus neural axon guidance. This suggests a cohesive theme where adhesion mediates developmental morphogenesis and planar patterning, with neural guidance as a related signaling aspect.","confidence":"Medium","size":29,"edges":377,"triangles":2963,"max_degree":28,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":17},{"id":"GO:0031581","count":15},{"id":"GO:0034446","count":15},{"id":"GO:0014719","count":14},{"id":"GO:0048105","count":14}]},{"hash":"1012043617566272705","title":"Retinoid and steroid hormone metabolism with redox signaling","description":"Most terms indicate retinoid metabolism (retinol, retinal) and retinoic acid signaling, plus C21-steroid hormone biosynthesis, pointing to a core retinoid/steroid metabolic module. The presence of oxidative stress and redox terms (oxidation-reduction, hydrogen peroxide) and metal response (cadmium ion) suggests this module also engages redox signaling and stress responses. A few outliers like norepinephrine and fructose biosynthesis are related but secondary. Overall, the cluster best fits a retinoid and steroid metabolism theme with redox/stress associations.","confidence":"Medium","size":29,"edges":396,"triangles":3403,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":22},{"id":"GO:0042574","count":22},{"id":"GO:0042415","count":16},{"id":"GO:0048385","count":16},{"id":"GO:0055114","count":16}]},{"hash":"1563372989240360079","title":"Developmental differentiation and morphogenesis","description":"This cluster\u2019s GO terms span differentiation of multiple tissues (neuron, cardiac, pancreatic, plant ovule) and key morphogenetic processes (cell-matrix and cell-cell adhesion, cytoskeleton dynamics, SMAD turnover, and mRNA localization), suggesting a broad developmental/morphogenesis-focused group rather than a single specific pathway.","confidence":"Medium","size":29,"edges":37,"triangles":12,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":28},{"id":"GO:0048482","count":28},{"id":"GO:0055011","count":28},{"id":"GO:0007160","count":28},{"id":"GO:0035849","count":28}]},{"hash":"1706276888032225877","title":"Immune and Neural Development Signaling","description":"This cluster is characterized by immune-related terms (T cell receptor signaling; thymus development) alongside neural/synaptic terms (protein localization to synapse; glutamatergic transmission) and general developmental processes (heart development; epithelial polarity; cell migration; transcription). The combination suggests proteins involved in broad developmental signaling across tissues, with notable emphasis on immune and neural development, rather than a single, tightly defined pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0048538","count":6},{"id":"GO:0035418","count":6},{"id":"GO:0000086","count":5},{"id":"GO:0006351","count":5}]},{"hash":"346749682982453081","title":"Keratinocyte differentiation and skin barrier formation","description":"Based on the GO terms, the cluster is centered around epidermal biology: establishment of skin barrier, hair cycle, keratinocyte activation, and cornification, indicating keratinocyte differentiation and epidermal barrier formation as the core theme. Some terms (lens fiber development, muscle contraction) are less directly related and may reflect broader differentiation signals or annotation noise, but the dominant signal points to skin/epidermal processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061436","count":3},{"id":"GO:0055015","count":3},{"id":"GO:1904714","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0032980","count":3}]},{"hash":"1764128833664821041","title":"Neuronal differentiation and cytoskeletal organization","description":"The cluster is enriched for terms tied to neuron development and structure, notably somatic motor neuron differentiation (GO:0021523) and neurofilament cytoskeleton organization (GO:0060052), with supporting hints from glutamate reuptake (neuronal signaling) and related neuronal maintenance processes. While some terms are broader (mitochondrial depolarization, protein catabolic processes), the dominant theme centers on neuronal differentiation and cytoskeletal organization, suggesting proteins function together in neuron structure and maturation rather than a single metabolic pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051901","count":2},{"id":"GO:0006334","count":2},{"id":"GO:1900148","count":2},{"id":"GO:0001306","count":2},{"id":"GO:1905045","count":2}]},{"hash":"424313919344180895","title":"GPCR-cAMP Signaling and Metabolic Stress Responses","description":"The cluster is enriched for GPCR-activating pathways (adenylate cyclase) and cAMP signaling, alongside energy metabolism (electron transport chain, thermogenesis) and inflammatory responses, suggesting a theme of signal transduction coordinating metabolism and stress responses across vascular and reproductive contexts.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0035025","count":11},{"id":"GO:0022900","count":11}]},{"hash":"676300592195839358","title":"Unknown","description":"The cluster's top GO terms cover sensory perception of pain and touch, cellular response to temperature, diet-induced thermogenesis, cardiac action potential regulation (atrial SA node), development/ossification, and immune response (LPS). This mix does not point to a single coherent function or pathway uniting the proteins, suggesting no clear shared role. Therefore, Unknown with None confidence. ","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0050976","count":8},{"id":"GO:0098914","count":8}]},{"hash":"1081845889500064742","title":"Insulin signaling and metabolic regulation","description":"This cluster is dominated by GO terms for insulin and IGF receptor signaling, PI3K-AKT pathway signaling, and regulation of fatty acid oxidation, suggesting a core theme around insulin/IGF-driven metabolic control. Additional terms tied to vascular and platelet responses (vasoconstriction, VEGF/prostaglandin signaling) indicate parallel regulation of vascular function, which often intersects with insulin signaling in metabolic tissues. Overall, the set reflects coordinated metabolic signaling with vascular aspects, supporting the label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":18},{"id":"GO:0048009","count":15},{"id":"GO:2001275","count":15},{"id":"GO:0010572","count":15},{"id":"GO:0045907","count":15}]},{"hash":"1623753249139037954","title":"Nuclear transport and cell division","description":"The cluster features GO terms centered on nuclear pore localization and mitotic processes (cell division, sister chromatid cohesion, spindle assembly), with supporting ubiquitin ligase regulation. Additional terms involve RNA maturation and rRNA processing, aligning with the needs of protein synthesis during division. Development-related terms appear but do not override the core theme, suggesting a primary association with nuclear transport and mitotic machinery.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031081","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0007064","count":8},{"id":"GO:0007275","count":8}]},{"hash":"2261432585632590688","title":"Developmental growth and cell cycle regulation","description":"The cluster centers on growth and development processes, including multicellular organism growth, mitotic cell cycle and cell division, along with transcriptional control (DNA-templated transcription) and signaling (TORC1) and trafficking (ER-Golgi transport). Tissue-specific development (seminiferous tubule development) and broader regulatory themes are present, with a few outliers like defense response and aging terms, suggesting a cohesive core around growth/development and cell cycle control rather than a single specialized function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006888","count":4}]},{"hash":"891534738160167848","title":"Receptor Trafficking and Signaling Regulation","description":"This cluster is defined by GO terms emphasizing receptor internalization and recycling, coupled with membrane targeting modulation and signaling pathway involvement (e.g., Smoothened). The presence of pollen tube growth and germination terms alongside trafficking-related terms suggests a shared theme around membrane receptor dynamics governing signaling processes, with broader stress/ xenobiotic response context. Overall, the core function appears to be endocytosis-mediated regulation of receptor signaling.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":3},{"id":"GO:0001921","count":3},{"id":"GO:0009860","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0007224","count":2}]},{"hash":"433882985490267420","title":"Developmental growth and mitotic machinery","description":"The cluster\u2019s terms span broad development (neuron projection development, skeletal morphogenesis) along with core cell division and chromosomal dynamics (mitotic spindle assembly, chromosome segregation, sister chromatid cohesion) and cytoskeletal regulation (actin depolymerization, cilium assembly), plus transcription/splicing and epigenetic marks. This suggests proteins functioning in developmental growth coordinated with mitotic and cytoskeletal processes, rather than a single narrow pathway.","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0048705","count":3},{"id":"GO:0030042","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2227310688081787167","title":"RNA Pol II Transcription Regulation","description":"The top GO terms are dominated by transcription-related processes, including DNA-templated transcription and negative regulation of transcription by RNA polymerase II, with phosphorylation as a notable associated process, suggesting a set of nuclear transcription regulators modulated by signaling. Although a few metabolic terms appear, they are less representative of the cluster\u2019s primary function, which centers on transcriptional control.","confidence":"High","size":29,"edges":22,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0016310","count":4},{"id":"GO:0070895","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0046022","count":4}]},{"hash":"2144742952112810631","title":"ECM remodeling and proteolysis","description":"The dominant GO terms point to extracellular matrix remodeling and proteolysis: collagen catabolic process, ECM disassembly, plasminogen activation, and fibrinolysis. Developmental terms (midbrain development, maternal axis specification) fit contexts where matrix remodeling is crucial, reinforcing the cohesive theme; coagulation-related terms also reflect proteolytic regulation in tissue remodeling and defense.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":7},{"id":"GO:0030194","count":7},{"id":"GO:0030574","count":7},{"id":"GO:0050830","count":7}]},{"hash":"305623973948700727","title":"Ubiquitin-mediated proteolysis and innate immune signaling","description":"This cluster centers on ubiquitin-dependent protein catabolic processes, including autoubiquitination and ERAD, with accompanying innate immune and antiviral defense roles (e.g., defense response to virus, TNF\u2013NF-kB signaling). The functional theme ties protein degradation via ubiquitination to immune signaling pathways.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":9},{"id":"GO:0045087","count":8},{"id":"GO:0036205","count":8}]},{"hash":"1433244042249224425","title":"Antiviral Innate Immune Response","description":"The top GO terms cluster around antiviral sensing and responses (cellular response to virus, dsRNA, innate immune response, NK cell activation) and together with antigen presentation (MHC I biosynthesis) and glucocorticoid response, point to a coordinated innate immune defense against viral infection and related immune regulation. This justifies labeling the cluster as antiviral innate immunity with related antigen presentation aspects.","confidence":"High","size":29,"edges":252,"triangles":1218,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0098586","count":10},{"id":"GO:0010628","count":9},{"id":"GO:0071222","count":9},{"id":"GO:0043330","count":9},{"id":"GO:0045343","count":9}]},{"hash":"2253090950637429805","title":"Immunomodulation and dendritic cell signaling","description":"This cluster is dominated by immune-related GO terms: innate immune response, regulation of macrophage activation, and positive regulation of dendritic cell differentiation and IL-10 production, alongside T cell costimulation and chemotaxis. While there are other terms like transcription, wound healing, and axon guidance, the strongest signal centers on immunomodulatory activity and dendritic/T cell\u2013associated signaling, suggesting a cohesive role in shaping immune responses.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0043031","count":4},{"id":"GO:2001200","count":4},{"id":"GO:2001181","count":4},{"id":"GO:0006351","count":4}]},{"hash":"64392034560905701","title":"Neural development and actin cytoskeleton remodeling","description":"The cluster is dominated by terms related to actin-based protrusions (lamellipodium/filopodium assembly) and cytoskeleton organization, plus spinal cord development and locomotory behavior, pointing to neuronal growth and motility. Activation of GTPase activity ties to actin dynamics, and endosome organization suggests intracellular trafficking important in neurons; metabolic terms like glucose transport and insulin signaling may reflect neural energy regulation. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0090630","count":4},{"id":"GO:0008344","count":4},{"id":"GO:0046847","count":4}]},{"hash":"1907220539824000833","title":"Plant Biosynthesis and Growth Regulation","description":"The terms cluster around biosynthetic pathways (antibiotic, biotin, strigolactone, chlorophyll catabolic) and regulatory processes (cell cycle, transcription), with plant-specific processes like strigolactone biosynthesis and chlorophyll metabolism suggesting a plant metabolism and growth control theme. This supports a label centered on biosynthesis and growth-related function, though the mix of terms keeps it somewhat broad. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0009102","count":7},{"id":"GO:0000082","count":7},{"id":"GO:0055114","count":7}]},{"hash":"1485757683105916283","title":"Telomere maintenance and telomeric localization","description":"The top terms cluster around telomere biology: telomere maintenance via telomerase, localization to telomeric chromosomal regions, and regulation of telomere-related chromatid cohesion. While there are a few terms related to development or signaling, the telomere-focused GO terms dominate, suggesting these proteins largely participate in chromosome end maintenance and telomere organization.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":10},{"id":"GO:0097274","count":8},{"id":"GO:0097284","count":8},{"id":"GO:1904908","count":7},{"id":"GO:0070198","count":7}]},{"hash":"1145874114043987741","title":"Ubiquitin-Proteasome Regulation and Circadian Control","description":"The top GO terms center on ubiquitin-dependent protein catabolic processes and protein polyubiquitination, including SCF-dependent proteasomal pathways, pointing to a core theme of targeted protein degradation. The notable presence of circadian rhythm regulation suggests these proteins influence clock timing via ubiquitin-mediated turnover, making proteostasis the unifying function, with additional terms related to development and cytoskeletal dynamics as broader contextual roles. Confidence is High.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0042752","count":15},{"id":"GO:0000209","count":13},{"id":"GO:0000083","count":13},{"id":"GO:0031146","count":12}]},{"hash":"2078408718052299276","title":"Unknown","description":"The terms cover immune interferon responses, vesicle trafficking, insulin-related glucose transport, bone development, and neuromuscular processes. The functions are diverse with no clear unifying theme across the cluster, so a specific, confident label cannot be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035455","count":6},{"id":"GO:0097091","count":5},{"id":"GO:0099638","count":5},{"id":"GO:0035456","count":5},{"id":"GO:0044381","count":5}]},{"hash":"1432342726522618948","title":"Unknown","description":"The top GO terms span transcription, cell cycle, DNA repair, development, immune defense, and growth responses, with no clear shared function or cohesive pathway. The lack of edges and the diverse themes suggest no single unifying label for this cluster, so an Unknown designation is appropriate.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0051301","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0000724","count":5},{"id":"GO:0050830","count":5}]},{"hash":"2059354996491735279","title":"Neural development and inflammatory vascular signaling","description":"The prominent GO terms cluster around brain development, innervation, and regulation of synaptic transmission, together with inflammatory responses and angiogenesis, suggesting a neural and vascular signaling theme. Some terms like leaf development and telomere maintenance regulation appear as outliers but do not negate the central neural-vascular/inflammatory pattern.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090181","count":5},{"id":"GO:0032930","count":5},{"id":"GO:0060384","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0090331","count":5}]},{"hash":"1530726025925366000","title":"Unknown","description":"The GO terms span diverse processes (vitamin D response, adipocyte differentiation, ubiquitination, lipid catabolism, cell migration, pain sensing, and stress-related transcription) with no clear single function tying the proteins together, and several terms are obsolete. The lack of cohesive biological theme and interactions suggests no reliable unified label can be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":11},{"id":"GO:0061408","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0045444","count":9},{"id":"GO:0016477","count":9}]},{"hash":"969438127340062","title":"Chromatin Organization and Transcription Regulation","description":"Based on the top GO terms, this cluster is centered on chromatin-associated processes and transcription control. Frequent terms include DNA-templated transcription, negative regulation of transcription elongation by RNA polymerase II, nucleosome assembly, and protein localization to chromatin, all pointing to chromatin structure guiding gene expression. Additional annotations related to histone modification appear, reinforcing a chromatin-regulation theme, while some developmental terms likely reflect broad roles of chromatin regulators in development rather than distinct functions of this cluster.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0034244","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0007140","count":3}]},{"hash":"1695059982366019895","title":"Immune and Developmental Signaling Network","description":"The cluster shows strong immune-related signaling (positive regulation of type II interferon production; T cell receptor signaling), alongside neural development cues (nervous system development; Roundabout signaling) and broader signaling/tissue-remodeling processes (PI3K-AKT signaling, serine phosphorylation, mechanotransduction, coagulation, ossification). This pattern suggests proteins involved in cross-talk between immune responses and developmental/tissue-homeostasis pathways, justifying a combined label around immune and developmental signaling.","confidence":"Medium","size":28,"edges":325,"triangles":2101,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032729","count":8},{"id":"GO:0050852","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0051897","count":7},{"id":"GO:0033138","count":7}]},{"hash":"1131849306277845213","title":"Metabolic Biosynthesis and Stress Response","description":"This cluster centers on multiple biosynthetic processes (fructose, fatty acids, retinol, lignin) and also includes stress- and drug-response terms (nitrosative stress, response to antineoplastic agents), suggesting a group of proteins involved in diverse biosynthetic pathways with broader stress adaptation roles.","confidence":"Medium","size":28,"edges":375,"triangles":3201,"max_degree":27,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046370","count":15},{"id":"GO:0042572","count":15},{"id":"GO:0006633","count":13},{"id":"GO:0000947","count":11},{"id":"GO:0010430","count":11}]},{"hash":"1362390503302376535","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000601","count":13},{"id":"GO:0071902","count":13},{"id":"GO:0050731","count":13},{"id":"GO:0071456","count":13},{"id":"GO:0051028","count":13}]},{"hash":"1480560969957293269","title":"Golgi-ER vesicle trafficking and endosome-lysosome transport","description":"The top GO terms indicate a focus on vesicle movement within the secretory and endocytic pathways, especially ER-Golgi and Golgi-ER transport, clathrin-mediated cargo loading, receptor internalization, and endosome-to-lysosome pathways, with melanosome-related organization linking to lysosome-related organelles.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0006890","count":7},{"id":"GO:0048499","count":5},{"id":"GO:0099590","count":5},{"id":"GO:0035652","count":5}]},{"hash":"103102720808481892","title":"Neural and Cardiac Morphogenesis and Signaling","description":"These proteins show themes of neural branching and dendrite morphogenesis, heart development and cardiac muscle contraction, and signaling pathways such as tachykinin receptor signaling, GPCR signaling desensitization, and Rho regulation. While some terms touch on osmotic stress and glucose response, the dominant pattern is development and signaling in nervous and cardiovascular tissues, supporting a label focused on neural and cardiac morphogenesis and signaling. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":6},{"id":"GO:0048755","count":4},{"id":"GO:0044381","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0048813","count":3}]},{"hash":"664483486886552374","title":"Unknown","description":"The GO terms span core cellular processes (DNA-templated transcription, DNA replication) and a wide mix of immune, developmental, and tissue-specific pathways (innate and T cell signaling, heart and Schwann cell development, visual perception, abscisic acid signaling), indicating no single cohesive function for the cluster.","confidence":"","size":28,"edges":259,"triangles":1117,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":26},{"id":"GO:0006260","count":25},{"id":"GO:0050830","count":24},{"id":"GO:0007601","count":24},{"id":"GO:0000086","count":24}]},{"hash":"1444215950231356175","title":"B cell receptor and Fc receptor signaling","description":"The cluster is strongly enriched for GO terms tied to adaptive immunity and Fc receptor signaling (B cell receptor signaling, Fc-epsilon receptor signaling, and adaptive immune response), with substantial representation of phagocytosis and defense against bacteria. These terms jointly point to a coherent theme of B cell\u2013driven adaptive signaling and Fc receptor\u2013mediated immune functions, with related regulatory aspects on NK cells and cytokine production.","confidence":"High","size":28,"edges":321,"triangles":2060,"max_degree":27,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":26},{"id":"GO:0002250","count":26},{"id":"GO:0038095","count":26},{"id":"GO:1900042","count":26},{"id":"GO:0006910","count":25}]},{"hash":"842676134695436766","title":"Developmental morphogenesis and cell adhesion","description":"The top GO terms cluster around organ/tissue development and morphogenesis (e.g., metanephros morphogenesis, fungiform papilla formation, CNS vasculogenesis) and along with cell movement and adhesion (cell migration, calcium-dependent cell-cell adhesion). They are complemented by cell-cycle regulation, chromatin remodeling, and cytoskeletal dynamics, suggesting a cohesive theme of coordinating tissue formation with cellular mechanics. Thus a label focused on developmental morphogenesis with emphasis on cell adhesion best captures the cluster.","confidence":"Medium","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":22},{"id":"GO:0032467","count":20},{"id":"GO:0016477","count":20},{"id":"GO:0061198","count":20},{"id":"GO:0003338","count":20}]},{"hash":"1321535881634029770","title":"Rho GTPase\u2013dependent cytoskeletal remodeling in immune cells","description":"This cluster centers on Rho/small GTPase signaling, lamellipodium formation, and actin dynamics, with immune- and hematopoietic-related differentiation signals (NK T cell differentiation, IL-7 response, hemopoiesis). The convergence of cytoskeletal remodeling and immune signaling terms suggests a coherent theme of actin-driven migration and immune cell signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":23},{"id":"GO:0030032","count":21},{"id":"GO:0048009","count":19},{"id":"GO:2001275","count":19},{"id":"GO:0046580","count":19}]},{"hash":"181818771684077510","title":"Epithelial Polarity and Junction Assembly","description":"This cluster's top GO terms cluster around epithelial cell apical/basal polarity, microvillus assembly, and bicellular tight junction formation, with supporting roles for cytoskeletal signaling (Rho) and centrosome localization. While a few terms touch neural development, the strongest pattern is the organization of epithelial polarity and junctional/cytoskeletal architecture, justifying a label focused on epithelial polarity and junction assembly.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0030500","count":6},{"id":"GO:0021744","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0030033","count":6}]},{"hash":"2077459220184054274","title":"Cytoskeletal dynamics and cell migration","description":"The top GO terms point to actin-based protrusions (lamellipodium and filopodium assembly), cell adhesion and spreading, and GTPase activation, all hallmarks of cytoskeletal remodeling and directional cell movement. Additional terms about neutrophil degranulation regulation, extravasation, and blood vessel remodeling suggest control of immune/vascular cell migration, while lysosome organization and autophagosome assembly hint vesicular trafficking linked to membrane remodeling during movement. Together, these indicate a core theme of cytoskeleton-driven motility and related vesicular processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0043314","count":3},{"id":"GO:2000786","count":2},{"id":"GO:0007040","count":2}]},{"hash":"1812883045716753981","title":"DNA replication and telomere maintenance","description":"The GO terms point to core genome maintenance processes: DNA replication initiation and premeiotic replication, telomere maintenance and capping, and error-prone translesion synthesis, plus RNA-templated DNA biosynthesis. These themes together suggest a cluster focused on DNA replication/repair and telomere upkeep, with some accompanying protein regulation and RNA processing aspects, rather than a single, unrelated function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006278","count":3},{"id":"GO:0000738","count":3},{"id":"GO:0000722","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0006511","count":3}]},{"hash":"1710098372619324420","title":"Auditory sensory neuron development and synapse formation","description":"The GO terms point to ear/vestibular and sensory-neuron development (otolith morphogenesis, auditory receptor cell development), along with synapse assembly, axonal fasciculation, and myelination, suggesting a focus on sensory-neuron maturation and neural connectivity in the auditory system.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":13},{"id":"GO:0014068","count":13},{"id":"GO:0042552","count":12},{"id":"GO:0032474","count":12},{"id":"GO:0007413","count":12}]},{"hash":"1828479845484697144","title":"Quinone and pigment biosynthesis","description":"These proteins show strong enrichment for biosynthetic processes of various quinones (menaquinone, ubiquinone, plastoquinone, phylloquinone) and related pigments (chlorophyll) as well as heme O, with a note on mitochondrial translation. The unifying theme is the production of electron carriers and pigments essential for respiration and photosynthesis, supporting a label around quinone and pigment biosynthesis.","confidence":"High","size":28,"edges":276,"triangles":1301,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":3},{"id":"GO:0006120","count":3},{"id":"GO:1901006","count":2},{"id":"GO:0048034","count":2},{"id":"GO:0010236","count":2}]},{"hash":"1107915723375063816","title":"Thermal and hypoxic stress signaling cluster","description":"The prominent GO terms cluster around responses to temperature and mechanical stimuli, hypoxia, dopamine/prostaglandin signaling, and calcium release, with additional thermogenesis and developmental terms. This suggests a broad module of stress-adaptive signaling and thermogenic processes rather than a single specific function, especially given the lack of network edges. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1804168515560544501","title":"ECM Organization and Angiogenesis","description":"The dominant terms center on collagen production/organization and cell adhesion (integrin/heterophilic), alongside VEGF signaling, collectively pointing to extracellular matrix remodeling and angiogenesis; related terms about connective tissue and smooth muscle behavior fit this vascular-supporting tissue remodeling theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1900748","count":10},{"id":"GO:0030199","count":9},{"id":"GO:0033631","count":9},{"id":"GO:0032331","count":9},{"id":"GO:0007157","count":9}]},{"hash":"1627647103569350297","title":"ER Stress and Proteostasis","description":"The term set centers on ER stress and protein quality control: unfolded protein response, regulation of translation initiation under ER stress, chaperone-assisted folding, and ubiquitin-dependent degradation. While some terms are obsolete or peripheral (e.g., cilium assembly, plant signaling), the core GO terms indicate cellular proteostasis mechanisms activated during protein-folding stress.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061087","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0070979","count":3},{"id":"GO:1902855","count":3}]},{"hash":"1821146004790024188","title":"Embryonic and placental development and patterning","description":"Most top GO terms cluster around embryonic development and placental/extraembryonic lineages (placental development, trophoblast differentiation), with several patterning/morphogenesis terms (left-right pattern formation, cartilage morphogenesis, roof of mouth development) and endocrine system development. This suggests the proteins partake in broad embryogenesis programs, especially placental/trophoblast pathways, rather than a single tissue-specific function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":26},{"id":"GO:0003198","count":26},{"id":"GO:0060972","count":26},{"id":"GO:0060536","count":26},{"id":"GO:0003323","count":26}]},{"hash":"1160659404226657595","title":"Oxidative stress-induced apoptosis and detoxification","description":"This cluster is dominated by GO terms related to apoptosis triggered by oxidative stress and cellular detoxification of oxidants (intrinsic apoptotic signaling in response to oxidative stress; p53-mediated pathway; cellular oxidant detoxification). Additional terms point to transcriptional regulation and calcium signaling, with a few notes on tissue development/homeostasis. Overall, the core theme is a stress-response program linking redox stress to programmed cell death and transcriptional responses, justifying this label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006808","count":2},{"id":"GO:0008631","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0033599","count":2},{"id":"GO:0048741","count":2}]},{"hash":"388873736044248554","title":"Unknown","description":"Top terms span antibiotic and biotin biosynthesis, strigolactone biosynthesis, phenylpropionate catabolism, detoxification, and diverse regulatory processes, with no single unifying function across all proteins. This dispersion makes it unclear which cohesive biological role best represents the cluster, so a precise label is not warranted.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0009102","count":7},{"id":"GO:0098869","count":7},{"id":"GO:0045736","count":6},{"id":"GO:2001015","count":6}]},{"hash":"1250630341831989935","title":"Keratinization & Hair Cycle","description":"Top GO terms indicate a coherent skin/hair biology theme, focusing on keratinocyte differentiation and hair follicle processes; the cluster likely comprises proteins involved in epidermal keratinization and hair cycle regulation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":28},{"id":"GO:0042633","count":28}]},{"hash":"1884839371148027041","title":"TLR-NF-kappaB Signaling and Xenophagy","description":"Based on the GO terms, the proteins cluster around Toll-like receptor signaling (TLR2/4), canonical NF-kappaB activation and its positive regulation, and xenophagy, indicating a core function in innate immune signaling and autophagic response to pathogens. While some terms are obsolete or unrelated, the dominant theme is TLR-driven NF-kappaB signaling with xenophagy involvement.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0034142","count":2}]},{"hash":"506664383859228360","title":"GPCR and GTPase Signaling Regulators","description":"The cluster is enriched for GO terms including positive regulation of GTPase activity, thrombin-activated receptor signaling, and negative regulation of Rac signaling, along with related pathways such as IGF receptor signaling and endocytic recycling, indicating a common function as modulators of GPCR- and GTPase-driven signaling networks, with broader involvement in receptor trafficking and apoptosis. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0070493","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0045671","count":3},{"id":"GO:0008625","count":3}]},{"hash":"596365431705191304","title":"Developmental transcriptional regulation","description":"Top GO terms show transcription by RNA polymerase II and regulation of transcription, along with diverse development- and differentiation-related terms across tissues (glial, muscle, stomatal, pancreatic PP cell fate, umbilical cord). This suggests a common theme of gene expression control guiding development and cell fate specification, justifying the label, despite a few terms touching broader cellular responses.","confidence":"Medium","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001038","count":26},{"id":"GO:0048712","count":26},{"id":"GO:0006366","count":26},{"id":"GO:0060415","count":25},{"id":"GO:2000820","count":25}]},{"hash":"2174339511534125626","title":"Hair Keratinization and Hair Cycle","description":"The top GO terms are keratinization and hair cycle, both core to hair shaft formation and epidermal cornification, suggesting this cluster groups keratin-related structural proteins involved in hair development.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":25},{"id":"GO:0042633","count":25}]},{"hash":"443839491298949899","title":"Embryonic organogenesis and heart development","description":"Top terms indicate widespread embryonic morphogenesis with transcriptional control, especially heart development and muscle precursor proliferation, plus limb, eye, placenta, and gonad morphogenesis. This pattern fits a cluster of transcription factors coordinating embryonic organogenesis, centered on cardiogenesis.","confidence":"Medium","size":27,"edges":191,"triangles":545,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0003148","count":12},{"id":"GO:0008584","count":11},{"id":"GO:0035116","count":10},{"id":"GO:2000288","count":10}]},{"hash":"6215328061225406","title":"Embryonic organogenesis and craniofacial development","description":"The cluster centers on developmental processes across multiple organs and craniofacial structures\u2014neural crest migration, roof of the mouth, hypothalamus and habenula development, tooth/odontogenesis, pancreas formation, digestive tract morphogenesis, and ureteric bud branching\u2014paired with transcriptional regulation, suggesting a cohesive role in embryonic morphogenesis and organogenesis rather than a single pathway. ","confidence":"High","size":27,"edges":132,"triangles":200,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0001755","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0048557","count":12},{"id":"GO:0090190","count":12}]},{"hash":"14663952592757190","title":"Leukocyte activation and trafficking","description":"The top GO terms cluster around immune function: basophil activation, Fc-gamma receptor signaling, leukocyte tethering/rolling, and regulation of NK cell chemotaxis, indicating activation and selective recruitment of leukocytes. Additional terms on cell adhesion molecule production and response to fungal origin support an inflammatory, adhesion-mediated migration theme, while lymph vessel morphogenesis suggests trafficking through the vasculature. A pair of metanephric kidney development terms appear as minor outliers.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":27},{"id":"GO:0036303","count":27},{"id":"GO:0045575","count":27},{"id":"GO:2000502","count":27},{"id":"GO:0072237","count":27}]},{"hash":"2024945552661635531","title":"Craniofacial and sensory organ development","description":"The cluster is dominated by terms tied to vertebrate craniofacial patterning and sensory organ formation: neural crest cell migration, cartilage and skeletal development, and morphogenesis of the inner ear, cochlea, and eye, along with visual perception. Although a general transcriptional regulation term appears, the shared signal is developmental programs governing craniofacial and sensory structures, supporting this label as representative of the cluster\u2019s function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":12},{"id":"GO:0051216","count":10},{"id":"GO:0048839","count":9},{"id":"GO:0001755","count":9}]},{"hash":"2141098140677802754","title":"Unknown","description":"The Top Terms span skin and multicellular development, hypoxia response, translation initiation and preinitiation complex formation, mRNA splicing, memory, apoptotic signaling, and leukocyte adhesion. This wide, unrelated mix lacks a single cohesive biological theme or pathway, and the cluster has no edges, suggesting no strong shared function. Therefore Unknown with None confidence.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0071456","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0000398","count":4}]},{"hash":"649571869327746745","title":"Mitosis Exit and Ubiquitin-Proteasome Regulation","description":"The cluster is dominated by GO terms related to mitotic exit, chromosome segregation, and G2/M transition, along with SCF-dependent ubiquitin-mediated proteolysis and K11-linked ubiquitination, indicating tight regulation of mitosis via the ubiquitin-proteasome system. Additional terms on spindle checkpoint silencing and protein quality control support a cohesive theme of controlled protein turnover during cell division, with a note on chromatin silencing that can intersect cell-cycle regulation. Overall, these proteins appear to co-function in mitotic progression and regulated proteolysis.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":27},{"id":"GO:0031146","count":27},{"id":"GO:0016032","count":27},{"id":"GO:0007059","count":27},{"id":"GO:0000086","count":27}]},{"hash":"1983061864383628794","title":"Ubiquitin-Proteasome System and ERAD","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis (SCF complex\u2013driven), protein autoubiquitination, and ER-associated degradation (ERAD), including K11-linked ubiquitination and protein neddylation. This points to a cohesive set of proteins involved in targeted degradation and quality control of misfolded proteins, especially in the ER, with regulation of degradation through neddylation. Some terms touch cell-cycle checkpoints and DNA damage responses, which can intersect with proteostasis, but the core theme remains ubiquitin-mediated proteolysis and ERAD.","confidence":"High","size":27,"edges":327,"triangles":2396,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":17},{"id":"GO:0051865","count":16},{"id":"GO:0030433","count":15},{"id":"GO:0070979","count":14},{"id":"GO:0070911","count":14}]},{"hash":"1697590094367917997","title":"Immune activation and phagocytosis network","description":"This cluster shows a cohesive immune module spanning adaptive (T cell proliferation, B cell activation, B cell receptor signaling) and innate (innate immune response, phagocytosis, complement activation) responses, with regulatory control on cytotoxic cells. The cardiovascular-related term appears incidental to the main immune theme.","confidence":"High","size":27,"edges":194,"triangles":577,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0050871","count":10},{"id":"GO:0006911","count":10},{"id":"GO:0006958","count":10}]},{"hash":"1171135132800687518","title":"Gene expression machinery and ribosome biogenesis","description":"The top GO terms point to core gene expression activities: DNA-templated transcription, mRNA splicing, ribosome biogenesis, and translation initiation/reinitiation, along with rRNA maturation and cell division. These collectively indicate a cohesive cluster of proteins involved in transcription, RNA processing, and ribosome assembly\u2014central components of the cellular machinery driving growth and mitosis. A few terms like innate immune response and neural tube closure appear less central, likely reflecting broader roles of these factors in development and immunity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006351","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1223229492817350583","title":"Mitochondrial respiration and ATP synthesis","description":"This cluster is dominated by GO terms tied to mitochondrial energy metabolism: proton transmembrane transport, NADH dehydrogenase to ubiquinone, cytochrome c to oxygen, proton motive force-driven ATP synthesis, ubiquinone biosynthesis, and mitochondrial translation, all pointing to components of the mitochondrial electron transport chain and ATP production; there are also links to glycolysis and apoptotic processes, reflecting broader energy metabolism and mitochondrial involvement.","confidence":"High","size":27,"edges":347,"triangles":2828,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0006120","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1926277005727028692","title":"Cell signaling and cytoskeleton regulation","description":"The terms point to signaling pathways (GPCR signaling, IGF response, protein autophosphorylation) that coordinate cell fate and behavior, along with cytoskeletal dynamics (actin filament bundle assembly) and post-translational modification (ubiquitination). While there is heterogeneity (polarity, apoptosis, cell cycle), the common theme is signaling networks governing cytoskeletal organization and cellular decisions, making a cohesive label like \u201cCell signaling and cytoskeleton regulation\u201d appropriate rather than an unrelated or overly specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:0097274","count":7},{"id":"GO:0090162","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0016567","count":6}]},{"hash":"226980574261880479","title":"NF-kappaB\u2013mediated innate immunity","description":"The cluster is dominated by GO terms related to innate immune responses and NF-kappaB signaling, including defense response to virus, innate immune response, and positive regulation of canonical NF-kappaB signal transduction, suggesting a core theme of immune signaling. Other terms like cellular response to hydrogen peroxide indicate an oxidative stress link, while a few development terms may reflect pleiotropic roles or incidental associations rather than a core function. Overall, the label captures the strongest shared function among the proteins.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0008344","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1810387073050621078","title":"GTPase Signaling Regulation","description":"The cluster\u2019s top GO terms center on small GTPase pathways: activation of GTPase activity and regulation of Rho and Ral protein signal transduction, indicating a shared focus on GTPase-regulated signaling. Although some terms relate to specific tissues or processes (e.g., mast cell degranulation, midbrain morphogenesis), the recurring theme is the regulation and activation of GTPase signaling components. This supports a cohesive, though not strictly tissue-specific, functional label for the group.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043303","count":5},{"id":"GO:0009736","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0032485","count":4}]},{"hash":"44329239803450944","title":"Neural GPCR-ERK signaling and sensory perception","description":"The cluster\u2019s top GO terms center on GPCR signaling and ERK1/2 cascade regulation, with strong neural function signals such as dopaminergic synaptic transmission, visual perception and learning, and cocaine-related behavioral responses. Although there are broader terms like prostaglandin response and macrophage chemotaxis, the dominant theme ties to GPCR-ERK\u2013driven neural signaling and sensory processing, making this a cohesive neural signaling module.","confidence":"High","size":27,"edges":321,"triangles":2260,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":18},{"id":"GO:0007601","count":18},{"id":"GO:0001963","count":18},{"id":"GO:0007507","count":18},{"id":"GO:0010759","count":18}]},{"hash":"1312058480341585363","title":"Retinal neuron development and optic nerve morphogenesis","description":"The top GO terms cluster around neuronal development, axon guidance, and optic nerve/retinal morphogenesis (retinal ganglion cell axon guidance, optic nerve morphogenesis, ephrin signaling, dendritic spine morphogenesis). This indicates the proteins are linked to neural development with a focus on retinal/optic nerve connectivity and related signaling pathways, despite some obsolete terms. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0090200","count":2},{"id":"GO:0051898","count":2}]},{"hash":"16670015071503159","title":"Neuroinflammation and brain vascular remodeling","description":"The top GO terms show innate immune response and complement activation, inflammatory signaling, and lipopolysaccharide response, while others point to brain development, axon guidance/extension, axonal fasciculation, and VEGF signaling with angiogenesis regulation. Together they suggest a cluster where immune processes intersect neural development and vascular remodeling in the brain, rather than a purely immune or purely neural module.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0014068","count":6},{"id":"GO:0006958","count":5},{"id":"GO:0050729","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0048842","count":4}]},{"hash":"881944687500376413","title":"Neural Development and Axon Growth","description":"The top GO terms cluster around neural formation and axon biology: brain development, neuron development, regulation of axon extension, cytoskeleton organization, and response to axon injury. This points to a cohesive theme of neural development and axon growth/remodeling, with xenobiotic catabolic terms present but less central to the main function. ","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0030516","count":7},{"id":"GO:0019381","count":6},{"id":"GO:0043419","count":6},{"id":"GO:0019557","count":6}]},{"hash":"2197779843122673603","title":"Neural development and synaptic organization","description":"The cluster shows strong enrichment for nervous system development, myelination, axon guidance (Roundabout/Slit-Robo) and synapse assembly/organization, plus Hedgehog (Smoothened) and ERK signaling. This points to a coherent theme of neural development and formation of neural connections, including synapse formation and myelination; a secondary innate immune signal is present but does not define the group.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":13},{"id":"GO:0042552","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0035385","count":13}]},{"hash":"496187879663498685","title":"Rho GTPase Signaling and Cytoskeletal Regulation","description":"The top GO terms cluster around regulation and activation of GTPase activity, especially Rho signaling, together with cytoskeletal dynamics such as actin filament depolymerization and microtubule-based movement, plus GPCR-linked signaling that can feed into Rho pathways. While a couple of terms touch on development or defense, the dominant theme is Rho-mediated control of the cytoskeleton and related signaling processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0021510","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0090630","count":3}]},{"hash":"1182636314545235674","title":"Cell Signaling and Migration","description":"The cluster includes terms related to receptor signaling (EGFR, TLR4/MyD88), endocytosis, transcription regulation, and several migration/ developmental processes (interkinetic and pronuclear migration, muscle development, endothelial migration). This combination points to a broader theme of intracellular signaling coupled with cellular movement and development, rather than a single, narrow function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022027","count":3},{"id":"GO:0035046","count":3},{"id":"GO:0072583","count":2},{"id":"GO:0050821","count":2},{"id":"GO:0045742","count":2}]},{"hash":"754378250719595069","title":"Adaptive and innate immune signaling","description":"The proteins are enriched for GO terms related to B cell receptor signaling, adaptive immune response, Fc-epsilon receptor signaling, and innate immune processes like neutrophil extravasation and phagocytosis, plus responses to LPS and IL-2 production. This pattern suggests a cluster centered on immune activation and signaling across both adaptive and innate arms. A few terms (liver development, social behavior) appear less aligned and may reflect background noise.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0045087","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0072672","count":3},{"id":"GO:0006911","count":3}]},{"hash":"360103880291198829","title":"Innate inflammatory signaling and IL-6 regulation","description":"This cluster is dominated by terms tied to innate immunity and inflammation, especially regulation of IL-6 production and related cytokine signaling (positive and negative regulation). Additional terms point to NOD2 signaling, dendritic cell cytokine regulation, and the broader inflammatory response, with supporting references to ubiquitin-proteasome\u2013mediated protein turnover and apoptosis, which can intersect immune signaling. Overall, the common theme is innate immune/inflammatory signaling with cytokine regulation, particularly IL-6.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031146","count":13},{"id":"GO:0090307","count":12},{"id":"GO:0006915","count":12},{"id":"GO:0032755","count":11},{"id":"GO:0045087","count":11}]},{"hash":"1874635426447023868","title":"Tissue Development and Differentiation","description":"This cluster centers on multicellular organism development and various tissue differentiation processes (keratinocytes, chondrocytes, cardiac muscle cells), suggesting a common theme in developmental programs. While there are also terms related to immune signaling and cellular processes like transcytosis, the dominant pattern ties to developmental differentiation across tissues. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045056","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006508","count":5},{"id":"GO:0002741","count":4},{"id":"GO:0051092","count":4}]},{"hash":"1873854640650512053","title":"Cardiovascular GPCR signaling and thermogenesis","description":"This cluster is dominated by GO terms for GPCR signaling activating adenylate cyclase, regulation of blood pressure, neuropeptide signaling, and diet-induced thermogenesis, with supporting terms on temperature response and energy metabolism. The recurring pattern points to GPCR/cAMP\u2013mediated signaling that influences cardiovascular regulation and thermogenic/metabolic processes, suggesting a cohesive functional module rather than disparate functions.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0019233","count":15}]},{"hash":"2207905130655033107","title":"Neural Sensory Perception and Dopaminergic Signaling","description":"This cluster is enriched for neural sensory functions: pain and temperature sensation, visual perception/learning, and dopaminergic synaptic transmission, plus ERK signaling regulation, which supports synaptic plasticity. Together, these terms point to a cohesive theme of neural sensory processing and dopaminergic modulation. Some terms like heart development or macrophage chemotaxis may reflect secondary roles of multifunctional proteins, but they do not dominate the cluster.","confidence":"Medium","size":27,"edges":50,"triangles":5,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0071502","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0070374","count":13},{"id":"GO:0007601","count":13}]},{"hash":"825434625928920464","title":"Transcriptional Regulation and Cell Proliferation","description":"Top GO terms indicate a strong emphasis on DNA-templated transcription and transcriptional regulation, coupled with mitotic cell cycle, cell division, and positive regulation of cell proliferation. Developmental processes and skeletal system development extend these functions to organismal growth, while GTPase activity regulation suggests coordinated signaling. Together these point to a cluster of proteins that govern transcriptional control of growth and developmental programs.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0008284","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007205","count":4}]},{"hash":"230662172321992225","title":"Neurodevelopment and innate immunity","description":"This cluster combines neural development terms (axonogenesis, corpus callosum development, dopamine response, pain behavior) with innate immune signaling (innate immune response, defense against Gram-positive bacteria, LPS response, dsRNA response), suggesting a shared theme of neuroimmune development and signaling. The presence of multiple development-related terms alongside immune terms supports a interpretive label that captures both aspects, though one term (bone development) adds some breadth; overall it points to a neurodevelopmental and immune-responsive cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0050830","count":6},{"id":"GO:0060348","count":6},{"id":"GO:0061368","count":5},{"id":"GO:1903351","count":5}]},{"hash":"1621001646970580610","title":"DNA replication, repair, and checkpoint signaling","description":"The top GO terms heavily emphasize DNA replication, DNA repair, and multiple DNA damage checkpoint pathways (e.g., meiotic cell cycle, intra-S checkpoint, replication checkpoint, and meiotic recombination checkpoint), indicating a coherent theme of genome integrity maintenance during replication and meiosis. A single outlier term (lung epithelial cell differentiation) appears incidental; overall the cluster reflects DNA damage response and cell-cycle control functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051321","count":8},{"id":"GO:0031573","count":7},{"id":"GO:0070940","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006281","count":5}]},{"hash":"955518296864407381","title":"Proteostasis and Apoptotic Response","description":"Based on GO terms, the cluster centers on apoptosis (apoptotic process; regulation of mitochondrial membrane permeability) and protein quality control mechanisms (chaperone-dependent refolding, proteasome regulatory particle assembly). Additional terms point to ER-Golgi transport and stress-related responses, suggesting a cohesive theme of cellular proteostasis under stress leading toward apoptotic signaling.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0070389","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2}]},{"hash":"161033666439649739","title":"TGF-beta\u2013related vascular and inflammatory regulation","description":"This cluster shows enrichment for regulation of TGF-\u03b2 signaling (negative regulation of TGF-\u03b2 receptor signaling; cellular response to TGF-\u03b2 stimulus), vascular functions (regulation of vascular permeability; regulation of cardiac muscle contraction), and an innate immune response (cellular response to lipopolysaccharide). Together these terms point to a coherent theme of TGF-\u03b2\u2013driven control of vascular integrity and inflammatory processes, including anti-fibrotic regulation via reduced fibroblast proliferation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0055118","count":3},{"id":"GO:0019933","count":3},{"id":"GO:0030512","count":3}]},{"hash":"2270533143867488225","title":"Transcriptional Regulation and Immune Signaling","description":"Fueled by GO:0006366 as the most frequent term, this cluster centers on transcription by RNA polymerase II. The presence of immune-related terms (interleukin-4 response, type II interferon production, NK cell cytotoxicity) alongside developmental and metabolic terms (ring gland development, brown fat differentiation, lactation) suggests a set of proteins involved in core transcriptional control that interfaces with diverse signaling and differentiation pathways rather than a single, narrowly defined process.","confidence":"Medium","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":24},{"id":"GO:0035470","count":14},{"id":"GO:0071353","count":13},{"id":"GO:0035271","count":12},{"id":"GO:1904576","count":12}]},{"hash":"1234825450406646234","title":"Transcription regulation and chromatin remodeling in development","description":"The top GO terms emphasize DNA-templated transcription, negative regulation of RNA polymerase II transcription, and chromatin remodeling, suggesting a core theme of transcriptional control. The accompanying developmental terms indicate these regulators influence diverse developmental processes across tissues. Together, the cluster likely comprises proteins involved in regulating transcription and chromatin state to govern development.","confidence":"Medium","size":26,"edges":104,"triangles":163,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0000122","count":14},{"id":"GO:0043044","count":12},{"id":"GO:0060534","count":11},{"id":"GO:2000020","count":10}]},{"hash":"2116371249552036193","title":"Neural crest and craniofacial development","description":"GO terms point to neural crest\u2013driven craniofacial development, including neural crest cell migration, odontogenesis (teeth), palate formation, brain/midbrain and inner ear structures; despite a couple miscellaneous terms, the dominant pattern is vertebrate head morphogenesis.","confidence":"High","size":26,"edges":13,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0030901","count":9},{"id":"GO:0048839","count":8},{"id":"GO:0090009","count":8},{"id":"GO:0044130","count":8}]},{"hash":"1591910837518837637","title":"Developmental branching morphogenesis and angiogenesis","description":"This cluster is enriched for angiogenesis and branching morphogenesis, including salivary gland branching, lung mesenchyme development, and organ induction, with supporting signals from FGFR/MAPK and phosphatidylinositol-mediated pathways. The mix of vascular and morphogenetic terms, plus neural development involvement, points to a cohesive role in coordinated tissue and vascular development during organogenesis.","confidence":"High","size":26,"edges":308,"triangles":2227,"max_degree":25,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0048015","count":7},{"id":"GO:0060484","count":7},{"id":"GO:0060665","count":7}]},{"hash":"1266427575341798838","title":"Developmental transcriptional regulation","description":"The cluster shows strong enrichment for RNA polymerase II\u2013mediated transcription and its negative regulation, together with broad developmental terms across neural, sensory, and organ morphogenesis (habenula, retina/eye, heart, digestive tract) and neuron differentiation, suggesting a group of proteins involved in controlling gene expression during development.","confidence":"High","size":26,"edges":291,"triangles":1873,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0000122","count":9},{"id":"GO:0021986","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0048565","count":8}]},{"hash":"2292781390181095691","title":"Dendritic spine morphogenesis and synaptic organization","description":"The cluster is dominated by GO terms tied to synapse development and plasticity, such as dendritic spine morphogenesis and long-term synaptic potentiation, plus synapse organization and cytoskeletal Rho signaling. While there are other terms (myoblast fusion, heart development, plant ABA signaling) that are less central, the strongest signals point to neuronal synapse formation and function, justifying this label.","confidence":"High","size":26,"edges":10,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060997","count":13},{"id":"GO:0060291","count":13},{"id":"GO:0007520","count":12},{"id":"GO:0050808","count":12},{"id":"GO:0035023","count":12}]},{"hash":"376667343258118863","title":"Signaling and stress-response proteins","description":"The top GO terms point to cellular signaling and responses to various stimuli, including signal transduction, GTPase regulation, TGF-beta signaling, responses to lipopolysaccharide, epinephrine, and factors affecting cardiac contraction. There is an outlier related to meiotic chromatid cohesion, but the dominant theme is proteins involved in transducing signals and coordinating stress- or hormone-driven responses.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":5},{"id":"GO:0007165","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0016032","count":3},{"id":"GO:0006470","count":3}]},{"hash":"164247065702333581","title":"Unknown","description":"GO terms span proteolysis, xenobiotic response, cellulose catabolism, neural development and synapse organization, bone development, neurotransmitter biosynthesis, cholesterol biosynthesis, and gibberellin signaling. This mix spans animal, plant, and microbial contexts with no single cohesive function linking the proteins, so there isn\u2019t a clear intuitive label.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0042493","count":4},{"id":"GO:0030245","count":4},{"id":"GO:0014016","count":3},{"id":"GO:0002076","count":3}]},{"hash":"90018152692836292","title":"Mitochondrial energy metabolism and ion transport","description":"The cluster is enriched for energy production and membrane transport: TCA cycle and glycolytic processes point to mitochondrial energy metabolism, while sodium and proton transmembrane transport align with ion homeostasis and vacuolar acidification. Although some GO terms are labeled obsolete, the dominant theme ties energy generation to membrane transport within mitochondria and related organelles, with translation being a secondary, less-distinct signal.","confidence":"High","size":26,"edges":233,"triangles":1043,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006814","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0006626","count":5},{"id":"GO:0019878","count":5},{"id":"GO:0033512","count":5}]},{"hash":"1183976667974113908","title":"Neural signaling and behavior","description":"Most terms point to brain function: dopaminergic synaptic transmission, visual perception/learning, behavioral response to cocaine, and ERK signaling, with brain renin-angiotensin system supporting central involvement. While a few terms (heart development, prostaglandin response) are peripheral, the dominant pattern is neural signaling and behavior, so \"Neural signaling and behavior\" is a representative label.","confidence":"Medium","size":26,"edges":133,"triangles":80,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071380","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0008542","count":19},{"id":"GO:0007507","count":19},{"id":"GO:0070374","count":19}]},{"hash":"1034553202994740921","title":"Ribosome biogenesis and RNA splicing","description":"This cluster is enriched for ribosome biogenesis and rRNA maturation (large subunit biogenesis, LSU/SSU rRNA maturation, preribosome assembly) as well as spliceosome-mediated mRNA processing and ncRNA-based gene silencing. The strong pairing of ribosome assembly terms with spliceosome-related processing terms suggests a cohesive RNA-processing functional theme. Some terms also point to stress-related mRNA regulation and stress granule localization, reinforcing a post-transcriptional regulatory context. High","confidence":"","size":26,"edges":200,"triangles":747,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0042273","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0000463","count":6}]},{"hash":"1719764873379909111","title":"Heart morphogenesis and SA node regulation","description":"The cluster centers on cardiac development, with terms for heart morphogenesis, outflow tract morphogenesis, proepicardium development, and SA node cell action potential regulation, indicating a cohesive cardiac formation and conduction theme. Other terms (DNA-templated transcription, ubiquitination, innate immune response) are broader or auxiliary but do not outweigh the cardiac focus. ","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048705","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0003007","count":2},{"id":"GO:0006351","count":2}]},{"hash":"2000560014817535302","title":"Synapse assembly and neuronal development","description":"The terms cluster around synapse organization and neuronal development, especially postsynaptic density assembly, AMPA receptor activity, nerve growth factor response, and GKAP clustering, with supporting themes of cell adhesion and migration; minor associations to heart/bone development likely reflect broad developmental roles.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":11},{"id":"GO:0007155","count":10},{"id":"GO:0016477","count":10},{"id":"GO:0097117","count":10},{"id":"GO:0030032","count":10}]},{"hash":"2032213390012536394","title":"Neural and muscle development with vision","description":"The GO terms indicate broad development-related processes centered on neural and cerebellar development, neuron formation, and visual perception, combined with muscle development via myoblast fusion and cell cycle activity, suggesting a cluster of genes coordinating neuro-muscular and sensory system formation.","confidence":"High","size":26,"edges":12,"triangles":6,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":18},{"id":"GO:0007601","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0014850","count":17},{"id":"GO:0000278","count":17}]},{"hash":"898992471854058502","title":"Cerebellar development and cell-cycle regulation","description":"This cluster is driven by neural-development terms focused on the cerebellum (cerebellar cortex formation; Bergmann glial differentiation) and by cell-cycle control terms (negative regulation of CDK activity; negative regulation of cell proliferation) along with a mitosis-related term (kinetochore localization). Insulin and T cell receptor signaling appear as broader signaling pathways that can intersect with neural contexts but are less central, so the cerebellar-development plus cell-cycle theme best fits the core terms.","confidence":"Medium","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":19},{"id":"GO:0034501","count":19},{"id":"GO:0021697","count":16},{"id":"GO:0008286","count":16},{"id":"GO:0060020","count":16}]},{"hash":"1223972646195629502","title":"Amino acid biosynthesis and catabolism","description":"Top GO terms show a strong focus on amino acid metabolism, including biosynthetic and catabolic processes for histidine, tyrosine, lysine, phenylalanine, and alanine, as well as related pathways like glyoxylate, kynurenine, sphinganine, and biotin biosynthesis. Notch signaling is also present among the terms, but the predominant theme across the cluster is amino acid metabolism and associated biosynthetic routes, which supports labeling the group as an amino acid\u2013centric metabolic module.","confidence":"Medium","size":26,"edges":119,"triangles":507,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":8},{"id":"GO:0007219","count":8},{"id":"GO:0042853","count":8},{"id":"GO:0019878","count":6},{"id":"GO:0009436","count":6}]},{"hash":"1573434603860204788","title":"Neural development and synaptic organization","description":"This cluster shows multiple neural-related terms: postsynaptic density assembly, AMPA receptor activity, nerve growth factor response, and peripheral myelin maintenance, plus lamellipodium assembly and cell migration, which align with neural development and synaptic organization. Bone development and innate immune terms appear but are less cohesive with the dominant neural signaling theme, suggesting a primary neuronal/synaptic function with some peripheral biology noise.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0060335","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0097117","count":4}]},{"hash":"321437883943539025","title":"Lipid hormone biosynthesis and female reproductive development","description":"This cluster is dominated by lipid-derived signaling and steroid hormone-related terms: prostaglandin biosynthesis, aldosterone biosynthesis, calcitriol biosynthesis, and vitamin D response, plus uterus and female gonad development. The co-occurrence of oxylipin biosynthesis further supports a lipid signaling theme, with reproductive tissue development as a notable secondary pattern. While there are some metabolic/alkaloid terms that are less cohesive, the strongest common thread is lipid hormone production linked to reproductive biology.","confidence":"Medium","size":26,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0060065","count":6},{"id":"GO:0008585","count":6},{"id":"GO:0071603","count":6},{"id":"GO:0046232","count":6}]},{"hash":"2228266691162740762","title":"Neural development and MAPK signaling","description":"Most top GO terms center on nervous system development (brain development, nervous system development, neuron-related regulation) and on regulation of MAPK pathways (ERK1/ERK2, JNK) and related phosphorylation processes. Together these suggest a cluster of proteins involved in neural development and signaling, with some related terms like cellular response to mechanical stimulus and mitochondrial outer membrane permeabilization reflecting broader neurobiological contexts. Therefore, the label neural development and MAPK signaling best captures the core theme.","confidence":"Medium","size":26,"edges":167,"triangles":408,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032729","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0033138","count":5},{"id":"GO:0007420","count":5}]},{"hash":"2009987380213558766","title":"Immune and neural signal transduction","description":"Top GO terms point to diverse signaling pathways, notably immune signaling (T cell receptor signaling, innate immune response, ephrin receptor signaling, Wnt signaling) and neural development/plasticity (long-term synaptic potentiation, neural tube closure, nitric oxide response). This suggests the cluster groups proteins involved in broad signal transduction across immune and nervous system contexts.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0060291","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0090263","count":5}]},{"hash":"2124004735918899105","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":197,"triangles":877,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":23},{"id":"GO:0000278","count":23},{"id":"GO:0051301","count":22},{"id":"GO:1905490","count":21},{"id":"GO:0006547","count":21}]},{"hash":"1338531184563453233","title":"Cytoskeletal remodeling and cell motility in development","description":"The top GO terms indicate actin cytoskeleton dynamics, Rho GTPase signaling, lamellipodium/filopodium assembly, and cell spreading/adhesion, pointing to cytoskeletal remodeling driving cell movement. Developmental terms like heart development and midbrain morphogenesis suggest this activity occurs in morphogenetic contexts. Overall, the cluster seems to group proteins involved in cytoskeletal regulation and motility during development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":15},{"id":"GO:0010765","count":15},{"id":"GO:0045907","count":14},{"id":"GO:0035023","count":14},{"id":"GO:0061000","count":14}]},{"hash":"127215884372371151","title":"Mitotic progression and spindle assembly","description":"The cluster\u2019s top GO terms are dominated by mitosis-related processes (mitotic cell cycle, mitotic spindle assembly, cell division) and proliferation regulation, with supporting kinase signaling (protein serine/threonine kinase activity, autophosphorylation) and GTPase activity, plus development-related growth signals. This points to a cohesive theme of cell-cycle progression during mitosis with regulatory signaling and developmental context.","confidence":"High","size":26,"edges":38,"triangles":27,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0090307","count":10},{"id":"GO:0008284","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0071902","count":9}]},{"hash":"13430436489721303","title":"Nervous system signaling and vision","description":"This cluster is dominated by GO terms tied to neural function and sensory perception: potassium ion transmembrane transport (neural excitability) and visual perception are the top terms, with nervous system development supporting a neural context. Additional terms reference sensory/autonomic processes (aerotaxis, CO2 detection, regulation of heart rate) and cell interactions relevant to neural tissues. Together, they point to proteins involved in neuronal signaling, vision-related processes, and autonomic regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071805","count":10},{"id":"GO:0007601","count":9},{"id":"GO:0007399","count":8},{"id":"GO:0034446","count":6},{"id":"GO:0034609","count":6}]},{"hash":"1803380718384175342","title":"Cardiovascular development and Rho-ERK signaling","description":"The cluster is enriched for heart development and angiogenesis, along with regulation of Rho GTPase signaling, ERK cascade activity, and cytoskeletal processes (filopodium assembly, cell spreading). These terms point to a cohesive role in cardiovascular development coordinated by Rho/MAPK signaling and associated cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0060313","count":4}]},{"hash":"147303197459695919","title":"Teichoic acid biosynthesis","description":"Based on the top GO term, teichoic acid biosynthetic process, the cluster seems centered on bacterial cell-wall biosynthesis. The presence of additional biosynthetic terms (CoA, FMN, ADP-L-glycero-beta-D-manno-heptose) suggests related metabolic activities common in bacteria. Some terms (response to xenobiotic stimulus, response to wounding) and obsolete annotations may reflect noise or annotation artefacts rather than a single cohesive function. Overall, the cluster likely represents teichoic acid biosynthesis with supporting metabolic pathways.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019350","count":4},{"id":"GO:0006486","count":4},{"id":"GO:0030206","count":3},{"id":"GO:0050650","count":3},{"id":"GO:0042493","count":3}]},{"hash":"1345609998343576460","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The top GO terms cluster around actin cytoskeleton remodeling (including actin cortical patch localization and mitotic actomyosin ring assembly), regulation of Rho-mediated signaling, and processes that establish or maintain cell polarity and shape, plus links to exocytosis and vesicle trafficking. Dendrite development also reflects actin-driven morphology changes, supporting a common theme of cytoskeletal dynamics governing cell polarity and membrane trafficking. Confidence: High","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0032782","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0051666","count":2},{"id":"GO:0035023","count":2}]},{"hash":"172947012505489479","title":"Rho/GTPase Cytoskeleton Signaling","description":"The cluster\u2019s top GO terms center on regulation of Rho signaling and positive regulation of GTPase activity, tied to actin cytoskeleton dynamics. Additional terms point to broader developmental signaling and differentiation processes (Wnt signaling, fat cell differentiation, neural development, and cardiac contraction), suggesting a group of proteins involved in signaling pathways that coordinate cytoskeletal changes with development. Overall, the dominant theme is Rho/GTPase\u2013driven cytoskeletal regulation with developmental context.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0031532","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0031578","count":3}]},{"hash":"1592773473151112432","title":"Neuronal axon guidance and synapse assembly","description":"The terms point to neuron connectivity processes: axon pathfinding (axonal fasciculation, branchiomotor and sympathetic neuron guidance), semaphorin-plexin signaling, and positive regulation of synapse assembly, with ERK signaling modulation\u2014dominant themes across the cluster. Some terms are unrelated background processes, but the core motif is clearly neuronal development and synaptic organization.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":14},{"id":"GO:0051965","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0070374","count":13},{"id":"GO:0001501","count":13}]},{"hash":"346672056232269820","title":"Innate Immune Signaling and Cytoskeletal Remodeling","description":"This cluster is dominated by GO terms for innate immune response and signaling (NF-kappaB, JNK, T cell receptor signaling), coupled with cytoskeletal dynamics (actin and microtubule organization, cell spreading) and processes like ubiquitination and autophagy, suggesting a cohesive theme of immune signaling linked to cytoskeletal remodeling and autophagic regulation. A uterus development term appears incidental and does not define the cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0034446","count":4},{"id":"GO:0007026","count":3},{"id":"GO:0030036","count":3}]},{"hash":"233821211201691410","title":"Neuronal GPCR signaling and plasticity","description":"The top GO terms point to GPCR pathways activating adenylate cyclase, ERK signaling, and Rho-mediated signal transduction, plus neuropeptide signaling and learning-related processes, which together suggest a cluster centered on GPCR-driven neuronal signaling and synaptic plasticity. While terms like electron transport chain and xenobiotic response hint at broader cellular functions, the dominant theme remains GPCR-mediated signaling in neural contexts. Overall, these proteins likely participate in GPCR signaling networks linked to neural activity and plasticity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0035025","count":6}]},{"hash":"518521539114928271","title":"Glycoprotein and proteoglycan biosynthesis in development","description":"The cluster centers on biosynthetic processes for glycoproteins and proteoglycans (e.g., chondroitin sulfate proteoglycans, arabinogalactan proteins, hydroxyproline-linked glycosylation, poly-N-acetyllactosamine) and includes development-related terms such as root hair development, insect visual primordium formation, and follicle epithelium polarity/adhesion, pointing to a shared theme of glycoprotein-rich extracellular components guiding tissue morphogenesis and cell surface interactions across organisms.","confidence":"Medium","size":26,"edges":136,"triangles":388,"max_degree":22,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0075015","count":11},{"id":"GO:0050650","count":6},{"id":"GO:0010405","count":6},{"id":"GO:0010493","count":6},{"id":"GO:0080147","count":6}]},{"hash":"2208889515409506435","title":"Ubiquitin-Dependent Proteolysis & Signaling","description":"The cluster is dominated by GO terms related to ubiquitin-mediated protein catabolic processes, including various ubiquitin linkages (K48, K63, K6), autoubiquitination, and histone ubiquitination, which indicate a core role in protein turnover. Additional terms point to regulatory functions in signaling pathways (TNF signaling) and cell fate decisions (necroptotic process), as well as circadian rhythm regulation, all of which can be modulated by ubiquitination. The combination suggests a coherent theme around ubiquitin-driven proteolysis and its broad regulatory effects.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0070936","count":10},{"id":"GO:1903265","count":9},{"id":"GO:0042752","count":8},{"id":"GO:0036205","count":8}]},{"hash":"1813901107994013146","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is characterized by strong representation of ubiquitination-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, and protein autoubiquitination), indicating a group of proteins involved in tagging substrates for degradation. The presence of a few unrelated GO terms related to tissue development likely reflects pleiotropic roles or annotation noise; overall, the core signal is ubiquitin-mediated protein turnover.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0051260","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0070294","count":6}]},{"hash":"365629700054958506","title":"Cartilage ECM Assembly and Remodeling","description":"This cluster centers on collagen biosynthesis and fibril organization, BMP-responsive chondrocyte signaling, and integrin-mediated cell-matrix adhesion/migration, together indicating cartilage extracellular matrix formation and remodeling and associated growth signals.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0071773","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0035988","count":2}]},{"hash":"175525408019675763","title":"Neuronal synaptic signaling and plasticity","description":"The cluster is dominated by GO terms linked to synaptic transmission, receptor signaling and clustering, calcium transport, and learning-related processes (LTP/LTD, social behavior, visual learning), indicating a cohesive role in neuronal communication and synaptic plasticity. A couple of outliers (ectoine transport, cell wall catabolic process) may reflect annotation noise rather than core function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035176","count":7},{"id":"GO:0060292","count":7},{"id":"GO:0007168","count":7},{"id":"GO:0043113","count":7},{"id":"GO:0051470","count":5}]},{"hash":"1233546256116903165","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000472","count":6},{"id":"GO:0000462","count":6},{"id":"GO:0000480","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0000463","count":6}]},{"hash":"46085737751902366","title":"Developmental transcription and morphogenesis","description":"The cluster\u2019s top GO terms merge gene-expression regulation (DNA-templated transcription, splicing, transcription factor regulation) with developmental morphogenesis (roof of mouth, left-right patterning, cartilage morphogenesis, placenta development, pancreatic cell development), suggesting these proteins coordinate transcriptional programs during embryonic development and organ formation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0060021","count":11},{"id":"GO:0000398","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0032298","count":10}]},{"hash":"304069853399863497","title":"Actin Cytoskeleton Remodeling","description":"The cluster shows strong representation of actin-related processes: Arp2/3-mediated actin nucleation, postsynaptic actin cytoskeleton organization, actin cortical patch assembly, regulation of cell shape and polarity, phagocytosis, and pathways linked to muscle fiber adaptation, all pointing to coordinated actin dynamics and cytoskeleton-driven morphology and trafficking.","confidence":"High","size":25,"edges":192,"triangles":771,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043503","count":19},{"id":"GO:0071963","count":13},{"id":"GO:0043981","count":13},{"id":"GO:0006348","count":13},{"id":"GO:0006909","count":13}]},{"hash":"2062936962126555019","title":"Neural crest and sensory organ development","description":"This cluster shows strong representation of neural crest cell migration and peripheral nervous system/neuron development, combined with morphogenesis terms for sensory organs (retina and cochlea) and related organogenesis (lung, muscle). Together these terms indicate a developmental program centered on neural crest\u2013driven neural development and the formation of sensory and related organs, with transcriptional regulation underpinning these processes.","confidence":"High","size":25,"edges":21,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":21},{"id":"GO:0090009","count":19},{"id":"GO:0048935","count":19},{"id":"GO:0001755","count":15},{"id":"GO:0006366","count":15}]},{"hash":"956142090773175279","title":"Unknown","description":"The GO terms span neural signaling, RNA regulation, cell cycle, adhesion, and even plant-specific biosynthesis, with no single cohesive function linking all proteins. Therefore there isn\u2019t a clear, representative label for this cluster.","confidence":"","size":25,"edges":203,"triangles":804,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009190","count":7},{"id":"GO:0034244","count":6},{"id":"GO:1905150","count":6},{"id":"GO:0021693","count":6},{"id":"GO:0032487","count":6}]},{"hash":"1393411189829355421","title":"Embryonic Development and Cell Cycle Control","description":"The cluster centers on cell division and mitotic cell cycle processes (cell division, mitotic cell cycle, regulation of cell cycle, chromosome condensation) with embryonic development signals (blastocyst formation, third ventricle development) and stem cell differentiation regulation, suggesting proteins that coordinate proliferation during development and chromatin-level regulation (histone demethylation). A single immune-related term is present but does not redefine the core function.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0051726","count":3},{"id":"GO:0060623","count":3}]},{"hash":"2150073885653686546","title":"Carbohydrate catabolic pathways","description":"The proteins are enriched for multiple sugar- and glycerol-related catabolic processes (xylose, arabinose, fucose, rhamnose, gluconate/glucuronate, glycerol, etc.) and carbohydrate phosphorylation, indicating a cohesive cluster of sugar utilization and breakdown functions.","confidence":"High","size":25,"edges":10,"triangles":2,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046167","count":7},{"id":"GO:0019640","count":7},{"id":"GO:0042355","count":7},{"id":"GO:0046835","count":7},{"id":"GO:0019521","count":7}]},{"hash":"2297576187947677165","title":"Rac-Driven Actin Cytoskeleton Remodeling","description":"The top GO terms cluster around Rac protein signaling and actin dynamics (Rac signaling, actin filament branching, filopodium assembly, cell shape/polarity), with related regulation of endocytosis and JNK signaling. This suggests a module where Rac-mediated signaling drives cytoskeletal remodeling and associated trafficking across immune and neuronal contexts.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010446","count":4},{"id":"GO:0016601","count":3},{"id":"GO:0045806","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0090135","count":2}]},{"hash":"1266185033889052112","title":"Ribosome Biogenesis and Translation Regulation","description":"The dominant GO terms are all about translation and ribosome assembly (initiation, elongation, termination, translation in cytoplasm, and small subunit biogenesis), with selenocysteine incorporation tying into specialized translation. A couple of less related terms (antibiotic response, glial proliferation) are likely incidental. Overall, the cluster appears to group proteins involved in the translation machinery and its regulation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0046677","count":5},{"id":"GO:0042274","count":4},{"id":"GO:2000767","count":4},{"id":"GO:0045901","count":4}]},{"hash":"1882495315683246412","title":"Neural morphogenesis and behavior","description":"Most top GO terms point to neural development and function, including dendrite morphogenesis, dendritic spine morphogenesis, equilibrioception, and social behavior, suggesting a cluster of genes involved in neuronal differentiation and behavioral traits. Some terms (brush border assembly, cellular response to xenobiotic stimulus) are less cohesive outliers, but the dominant signal is nervous system morphogenesis and signaling.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0010951","count":3},{"id":"GO:0043433","count":2}]},{"hash":"686387370634487000","title":"Immune cell adhesion and synapse regulation","description":"The cluster centers on immune-related functions: cell\u2013cell adhesion (heterophilic/homophilic), T cell costimulation, NK and macrophage regulation, immunoglobulin production, and regulation of synapse assembly, plus symbiont entry into host cells. Together these terms point to immune cell interactions and immune synapse formation/activation as the core theme; the ossification term is a less central outlier.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0007156","count":14},{"id":"GO:0043931","count":12},{"id":"GO:0031295","count":12},{"id":"GO:0002859","count":12}]},{"hash":"1167615033827546200","title":"Translation with stress-response signals","description":"The dominant term is translation (GO:0006412) with several proteins, indicating a core protein-synthesis role. Several stress-related GO terms (cellular response to insulin, aluminum, lithium, ethanol, toxic substances) plus DNA repair suggest the cluster also includes components involved in stress response and genome maintenance. Some biosynthetic terms are obsolete and likely artefacts. Overall, the cluster centers on translation while incorporating broader stress-response elements rather than a single cohesive pathway.","confidence":"Medium","size":25,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0032869","count":3},{"id":"GO:0033512","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0010044","count":2}]},{"hash":"30555818896071438","title":"Neural GPCR signaling and learning","description":"This cluster\u2019s top GO terms cluster around neural signal transduction and learning processes, particularly GPCR-mediated pathways (adenylate cyclase activation; PLC via serotonin receptors) and CNS-related functions like morphine response, visual learning, and operant conditioning. While other terms touch on broader physiological roles (blood pressure, astrocyte chemotaxis), the dominant pattern points to neural signaling and cognitive/plasticity-related processes, supporting a cohesive, albeit broad, neural signaling theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043278","count":21},{"id":"GO:0008542","count":20},{"id":"GO:0035106","count":20},{"id":"GO:0007190","count":20},{"id":"GO:2000484","count":20}]},{"hash":"438073930837761912","title":"Insulin/IGF signaling and cell cycle control","description":"The cluster is enriched for insulin receptor and IGF receptor signaling terms, along with positive regulation of CDK activity and G1/S transition, plus DNA transcription regulation, suggesting a cohesive theme where growth factor signaling drives cell cycle progression and transcriptional control. Additional terms touching on endocytic recycling and phosphatidylinositol dephosphorylation fit the broader signaling and trafficking context of this network.","confidence":"Medium","size":25,"edges":30,"triangles":8,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046626","count":7},{"id":"GO:0045737","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0051301","count":4}]},{"hash":"121853900174574745","title":"Vesicle trafficking and exocytosis","description":"The top GO terms point to intracellular transport and vesicle-related processes, including exocytosis (Ca2+-dependent), ER-Golgi lipid transport, and membrane organization, with supporting signals from filopodium assembly and vesicle-related events like acrosome reaction. Some terms are broader or atypical (heart development, fat cell differentiation), but the dominant theme centers on vesicle movement and fusion.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0007340","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0031321","count":3}]},{"hash":"2188190405136185547","title":"Vertebrate Development, Angiogenesis, and Immunity","description":"The top GO terms span developmental pathways (Wnt signaling, chondrocyte and glomerular basement membrane development, prostatic bud formation), vascular/angiogenic processes, and immune-related activities (complement activation, response to lipopolysaccharide, coagulation). This suggests a cohesive module linking development with vascular and immune system functions, even though transcriptional regulation appears among the terms as well.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030194","count":6},{"id":"GO:0016055","count":5},{"id":"GO:0002063","count":5},{"id":"GO:0060686","count":5}]},{"hash":"1247935562407411452","title":"Innate immune and cellular stress responses","description":"The top GO terms indicate a strong emphasis on innate immunity and stress-related defenses (innate immune response, defense response to virus, cellular response to lipopolysaccharide, response to gamma radiation, cellular response to lead ion). Translation and tRNA modification terms suggest general protein synthesis and RNA processing that could support immune and stress-related protein production, while retinol and lipid metabolic terms may reflect metabolic remodeling during stress. Overall, the cluster centers on host defense and cellular stress responses, with underlying housekeeping processes. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0002181","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1530047531119384528","title":"Ubiquitin-Dependent NF-kB and B-Cell Signaling","description":"The cluster centers on ubiquitin-mediated protein turnover and ubiquitination, together with NF-kappaB pathway activation, B cell homeostasis, and regulation of related signaling (including JNK) and processes like V(D)J recombination. This points to a cohesive theme of ubiquitin-driven control of immune signaling in B cells, with NF-kB and MAPK involvement.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0051092","count":9},{"id":"GO:0001782","count":9},{"id":"GO:1901253","count":9},{"id":"GO:0085020","count":9}]},{"hash":"583692809322443428","title":"Rho/GTPase signaling and endocytosis","description":"The top terms cluster around regulation and activity of Rho-family GTPases, plus endocytic processes such as clathrin-mediated endocytosis and GPCR internalization, with supporting links to actin remodeling (lamellipodium assembly) and receptor signaling (EGF response). This points to a cohesive module where GTPase signaling governs endocytosis and vesicle trafficking, making the label appropriate.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0072583","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0071364","count":4}]},{"hash":"337676746673503145","title":"Neural signaling and drug-response pathways","description":"The cluster is dominated by terms tied to brain function and behavior: sensory perception of pain, regulation of dopamine secretion, GABAergic synaptic transmission, and regulation of the ERK1/2 cascade, all pointing to neural signaling and synaptic plasticity. Coupled with morphine and cocaine response terms and brain-specific systems (brain renin-angiotensin), the set suggests proteins involved in neural communication, reward processing, and drug-induced behavioral responses. While a few terms like heart development or visual learning appear, the central theme remains brain signaling and psychoactive drug responsiveness.","confidence":"High","size":25,"edges":43,"triangles":5,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0008542","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0032228","count":16},{"id":"GO:0071502","count":16}]},{"hash":"1076294874666892004","title":"Retina development and visual learning signaling","description":"The top terms point strongly to retina development in camera-type eyes and visual learning, with supporting neuronal signaling pathways (adenylate cyclase activation, GTPase activity, serotonin receptor\u2013 PLC signaling) and proliferation. While a few terms are broader (blood pressure regulation, IL-8), the strongest, highly represented GO terms tie to vision-related development and signaling, suggesting a cluster centered on retina development and vision-associated neuronal signaling.","confidence":"Medium","size":25,"edges":296,"triangles":2209,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":25},{"id":"GO:0060041","count":25},{"id":"GO:0008283","count":25},{"id":"GO:0043547","count":25},{"id":"GO:0008542","count":23}]},{"hash":"5205384289546907","title":"Amelogenesis and ECM remodeling","description":"The dominant GO terms center on enamel formation (amelogenesis), biomineral tissue development, collagen catabolic process, and extracellular matrix disassembly, indicating a cluster of proteins involved in tooth enamel maturation and matrix turnover during development. While transcription regulation terms are also present, the strongest signal is ECM remodeling linked to biomineralization.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030194","count":6},{"id":"GO:0031214","count":6},{"id":"GO:0071333","count":5},{"id":"GO:0030574","count":5}]},{"hash":"2255564414556167170","title":"Neuronal development and synaptic signaling","description":"The cluster is strongly enriched for neural-related terms: synapse organization, positive regulation of excitatory postsynaptic potential, and convergence-extension in neural plate elongation, plus behavior-related terms (exploration and social behavior) which point to neuronal function and development. While there are also epithelial polarity and barrier-related terms, the dominant signal centers on neural development and synaptic activity.","confidence":"Medium","size":25,"edges":30,"triangles":13,"max_degree":13,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070433","count":21},{"id":"GO:0050808","count":20},{"id":"GO:0090557","count":20},{"id":"GO:0035640","count":19},{"id":"GO:2000670","count":19}]},{"hash":"527363262765299876","title":"Ubiquitin signaling in innate antiviral immunity","description":"This cluster is dominated by GO terms for ubiquitin-dependent proteolysis and various ubiquitin linkages (K6, K63, linear) plus innate immune and antiviral defense processes, including NF-kappaB signaling. Together they point to proteins coordinating ubiquitin-mediated regulation of antiviral innate immunity.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0045087","count":13},{"id":"GO:0085020","count":13},{"id":"GO:0070534","count":13},{"id":"GO:0051865","count":13}]},{"hash":"819554930717574165","title":"Cardiac Muscle Signaling and Development","description":"This cluster is dominated by heart-related GO terms (heart development, cardiac muscle contraction, negative regulation of striated muscle contraction) and GPCR- and Rho-signaling activities (regulation of Rho protein signal transduction, desensitization of GPCR signaling, tachykinin receptor signaling). Together these point to a cardiovascular signaling module underlying heart development and contraction, with components that also participate in neural GPCR pathways and vascular remodeling; the appearance of terms like sensory perception of sound and synaptic vesicle priming may reflect shared signaling machinery or broad tissue co-expression rather than a single tissue-specific function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0002029","count":3},{"id":"GO:0016082","count":3}]},{"hash":"1532166616962113227","title":"Suppressed Growth Signaling and Tissue Remodeling","description":"This cluster centers on terms describing downregulation of key growth signaling pathways (PI3K/AKT and Wnt) and inhibition of proliferation, with concurrent endpoints involving tissue remodeling such as brush border assembly and endothelial cell migration during angiogenesis. While some terms like brush border and endothelial migration suggest structural remodeling, others are disparate (e.g., equilibrium perception), indicating a general theme of growth signal suppression coupled with remodeling processes rather than a single cohesive pathway. Confidence: Medium.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051898","count":3},{"id":"GO:0050957","count":2},{"id":"GO:1904970","count":2},{"id":"GO:0050821","count":2},{"id":"GO:0002044","count":2}]},{"hash":"1266826602716082088","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (nuclear export regulation, Rho signaling, visual perception, various cell cycle events, heart development, synaptic targeting, NFAT signaling, proliferation control, and receptor clustering). There isn\u2019t a single cohesive function or pathway tying these proteins together, suggesting the cluster spans diverse roles rather than a specific shared function.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0007507","count":4}]},{"hash":"343731063619775075","title":"Synaptic Signaling and Actin Remodeling","description":"Based on the top GO terms, the cluster centers on signaling processes that are tightly linked to cytoskeleton and vesicle dynamics, notably synaptic vesicle priming, actin cytoskeleton organization, and signaling pathways (Rho and Ras) that regulate movement and vesicle trafficking. The presence of related processes like acrosome reaction and sodium transport regulation across neural contexts supports a unifying theme of cytoskeleton-driven signaling and vesicle management in excitable or motile cells. This motivates a label focusing on synaptic signaling and actin remodeling as representative of the cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0016082","count":6},{"id":"GO:0010572","count":6},{"id":"GO:0060313","count":6}]},{"hash":"949206465819845601","title":"Secretory pathway and cell proliferation","description":"The cluster's top GO terms emphasize vesicle trafficking and the secretory pathway (COPII-coated vesicle budding; retrograde Golgi-ER transport) along with cell growth and division (cell division, mitotic cell cycle, cell population proliferation, multicellular organism growth). This suggests a coherent theme around proteins involved in secretory machinery that support cell proliferation, with other terms like apoptotic and taste perception being less central or incidental. Overall, the dominant signal points to secretory trafficking linked to growth.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0035264","count":2}]},{"hash":"928642328429134397","title":"Dopamine GPCR-cAMP Neural Signaling","description":"Top GO terms point to dopamine receptor signaling that activates adenylate cyclase and other GPCR pathways, including prepulse inhibition and neural regulation of blood pressure. This suggests a core function in dopaminergic GPCR-cAMP signaling and related neural regulation, with other terms like inflammatory response and electron transport chain likely reflecting broader cellular roles or annotation noise. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060134","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0007202","count":6},{"id":"GO:0007191","count":6}]},{"hash":"492778910706172743","title":"Vertebrate embryonic morphogenesis and transcription regulation","description":"The cluster contains terms linking transcriptional control by RNA Pol II (including both active transcription and negative regulation) with embryonic morphogenesis across multiple organs (eye, brain, lung/ureteric bud branching), suggesting a cohesive group of proteins coordinating development at the transcriptional level.","confidence":"High","size":24,"edges":116,"triangles":141,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0006366","count":14},{"id":"GO:0060441","count":12},{"id":"GO:0048048","count":12},{"id":"GO:0043010","count":12}]},{"hash":"1652320982846076088","title":"Eye development and transcriptional regulation","description":"The cluster is enriched for genes involved in eye morphogenesis and retina/camera-type eye development, including embryonic eye morphogenesis, suggesting a cohesive eye-development theme. Additional neural development terms (forebrain patterning, pituitary development) indicate broader neural patterning roles. The presence of transcription-related terms (transcription by RNA polymerase II and its negative regulation) implies these proteins are transcriptional regulators driving these developmental programs, making the eye and neural development theme coherent.","confidence":"High","size":24,"edges":135,"triangles":261,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0060041","count":11},{"id":"GO:0021983","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0060441","count":11}]},{"hash":"304406536939945975","title":"ECM Remodeling with Coagulation and Inflammation","description":"This cluster is characterized by strong signals for extracellular matrix disassembly and collagen catabolic processes, plus angiogenesis and immune/coagulation pathways (blood coagulation, complement activation, LPS response). Amelogenesis also ties to mineralized ECM. The convergence on ECM remodeling with vascular and inflammatory signaling makes a cohesive functional theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0016055","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0032496","count":7}]},{"hash":"1208167730392485249","title":"Redox and Biosynthesis Pathways","description":"The top GO terms point to oxidation-reduction (redox) activities along with multiple biosynthetic processes across different substrates, including serine biosynthesis, lipopolysaccharide biosynthesis, polyhydroxybutyrate biosynthesis, and antibiotic biosynthesis, plus a toxic-substance response. This pattern suggests a cluster centered on general metabolism and detoxification rather than a single specific function.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009636","count":4},{"id":"GO:0006564","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0017000","count":4}]},{"hash":"251002382389291279","title":"Wnt signaling and developmental regulation","description":"Top terms indicate a core theme of signaling and transcriptional control linked to development, especially the prominence of the Wnt signaling pathway and negative regulation of transcription by RNA polymerase II, together with multiple development-related terms (midbrain, multicellular organism development, female gonad development). Although there are some immune-defense and coagulation terms, they are less central to the cluster's overall pattern, making a developmental signaling and transcriptional regulation theme the most representative label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0016055","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0044130","count":5}]},{"hash":"513102535098990242","title":"Neurodevelopmental and Immune Signaling","description":"The terms show a blend of neural development (nervous system development, neurogenesis, forebrain cell migration) and key signaling pathways (T cell receptor signaling, Hedgehog via Smoothened, Roundabout signaling, MAPK regulation), along with immune differentiation (NK cell differentiation). This pattern suggests proteins involved in developmental signaling with relevance to both neural and immune lineages, rather than a single, narrow function. Some terms about general development (kidney development) and intracellular trafficking are consistent with broad developmental signaling networks.","confidence":"Medium","size":24,"edges":274,"triangles":1981,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050852","count":17},{"id":"GO:0007224","count":17},{"id":"GO:0007399","count":17},{"id":"GO:0001822","count":17},{"id":"GO:0035385","count":17}]},{"hash":"489454307554523694","title":"Neural Crest Migration and Axon Guidance","description":"The top GO terms are strongly centered on neural development, including ventral trunk neural crest cell migration, semaphorin-plexin signaling in axon guidance, sympathetic neuron projection extension, and trigeminal nerve organization, with additional terms linking to synapse assembly and cell\u2013cell adhesion. While there are some immune/adhesion signals present, the dominant theme across the terms points to neural crest migration and axon guidance in nervous system development.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0000187","count":12},{"id":"GO:0042742","count":11},{"id":"GO:0051965","count":10}]},{"hash":"1100835272223332328","title":"Neuronal migration and membrane remodeling","description":"The terms cluster around neural development and cell motility: leading process extension in radial glia implies neuronal migration; filopodium assembly and actin cytoskeleton reorganization reflect protrusive dynamics; caveolin-mediated endocytosis and plasma membrane tubulation indicate membrane trafficking/remodeling; extracellular matrix signaling and Kit signaling provide guidance cues in neural contexts. Together these suggest neurons migrating with dynamic actin-driven protrusions and coordinated membrane trafficking in response to ECM cues.","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0038109","count":4},{"id":"GO:0072584","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0035176","count":3}]},{"hash":"449302905958180022","title":"DNA Damage Response and Repair","description":"The cluster is enriched for terms related to DNA damage sensing and repair (gamma radiation response, interstrand cross-link repair, DNA strand displacement) and DNA-damage\u2013induced apoptosis, with additional signals of cellular stress responses (camptothecin response, inflammatory response). This combination points to a coherent theme of DNA damage response and repair pathways leading to apoptosis.","confidence":"High","size":24,"edges":183,"triangles":680,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010332","count":5},{"id":"GO:0071897","count":5},{"id":"GO:0008630","count":5},{"id":"GO:0007568","count":5},{"id":"GO:0006954","count":5}]},{"hash":"563674121283649514","title":"Ubiquitin-Dependent NF-kappaB Signaling","description":"This cluster is dominated by ubiquitination processes (K48 and K63 linkages, autoubiquitination) and NF-kappaB pathway activation signals (IKK activation, I-kappaB phosphorylation) along with TNF signaling and apoptosis regulation, indicating a cohesive module centered on ubiquitin-mediated control of NF-kappaB signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0070936","count":9},{"id":"GO:0016567","count":9},{"id":"GO:0007250","count":8},{"id":"GO:0070534","count":8}]},{"hash":"1066164356950315633","title":"Lipid, steroid, and xenobiotic metabolism","description":"The top GO terms cluster around lipid-derived signaling and steroid hormone biosynthesis (prostaglandin, oxylipin, calcitriol, aldosterone, brassinosteroid processes) and related lipid oxidation, plus xenobiotic and secondary metabolite catabolism (coumarin metabolism). This suggests a cohesive theme of lipid/steroid metabolism and processing, with some plant-specific secondary metabolism terms appearing as outliers. Overall, a lipid- and steroid-centric metabolic theme best fits the group.","confidence":"High","size":24,"edges":216,"triangles":1045,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":19},{"id":"GO:0060065","count":17},{"id":"GO:0036378","count":16},{"id":"GO:0032342","count":16},{"id":"GO:0031408","count":16}]},{"hash":"1167981407590218895","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0006407","count":1},{"id":"GO:0046718","count":1}]},{"hash":"1179180888966132857","title":"RNA splicing and gene silencing regulation","description":"The top GO terms cluster around post-transcriptional control: multiple entries emphasize mRNA splicing (spliceosome, splice site recognition, alternative splicing regulation), together with RNA silencing pathways (ncRNA- and miRNA-mediated silencing) and translation initiation aspects, plus mRNA stability under stress. This points to a cohesive module of RNA processing and gene expression regulation at the splicing and silencing level, justifying a label focused on splicing and RNA silencing regulation.","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0006376","count":9},{"id":"GO:0075522","count":9},{"id":"GO:0000381","count":9}]},{"hash":"891072958901925851","title":"RNA processing, splicing, and translation regulation","description":"Most of the top GO terms cluster around RNA metabolism\u2014mRNA export from the nucleus, spliceosome-mediated splicing and splice-site recognition, and regulation of mRNA stability in response to stress\u2014along with control of translation (miRNA-mediated silencing and viral IRES-dependent initiation/termination-reinitiation). A minority term (T cell receptor signaling) is present but does not dominate the functional theme. This suggests a cohesive cluster centered on post-transcriptional RNA processing and translational control. ","confidence":"High","size":24,"edges":25,"triangles":2,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0050852","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0000381","count":3}]},{"hash":"1739666913049863359","title":"Spliceosome-driven mRNA processing","description":"The cluster is enriched for GO terms related to mRNA splicing via the spliceosome, splice-site recognition, regulation of alternative splicing, mRNA export from the nucleus, and mRNA stability in response to stress, along with miRNA-mediated translational repression. This points to a cohesive theme of RNA processing and post-transcriptional gene regulation, centered on splicing and export.","confidence":"High","size":24,"edges":229,"triangles":1259,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":22},{"id":"GO:0006376","count":21},{"id":"GO:0075522","count":21},{"id":"GO:0000381","count":21},{"id":"GO:0010610","count":21}]},{"hash":"1825728035125158477","title":"Neuronal GPCR signaling and learning","description":"This cluster is dominated by GO terms for GPCR-mediated signaling (serotonin receptor pathways, PLC activation, adenylate cyclase) and neural/behavioral processes (visual learning, operant conditioning), suggesting a cohesive theme of neuronal signal transduction linked to learning and plasticity.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":21},{"id":"GO:0008542","count":20},{"id":"GO:0035106","count":20},{"id":"GO:0007190","count":20},{"id":"GO:2000484","count":20}]},{"hash":"1583709049779946283","title":"Unknown","description":"Top terms include phosphorylation, various biosynthetic and proteolytic processes, and organismal traits (spleen development, heart rate regulation, walking behavior). The terms do not point to a single coherent function or pathway, so there isn't a clear unifying theme for this cluster.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0009089","count":3},{"id":"GO:0019877","count":3},{"id":"GO:0006508","count":3}]},{"hash":"2157781440125959133","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":8,"triangles":0,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1750249090193482923","title":"Ribosome/Translation Machinery with Transcription Regulation","description":"Most proteins in this cluster are tied to translation and ribosome biogenesis/assembly (GO:0006412, GO:0000027, GO:0042273, GO:0006415), indicating a core role in protein synthesis. In addition, several terms relate to transcription processes (DNA-templated transcription termination/elongation, transcription antitermination), suggesting ancillary involvement in gene expression regulation. The dominant signal is translation machinery, with secondary links to transcription control, making this a cohesive translation-centric cluster with some transcription-related overlap.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0000027","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0006415","count":3},{"id":"GO:1904803","count":2}]},{"hash":"1846439580557277681","title":"Adipocyte differentiation and foam cell regulation","description":"The cluster is enriched for fat cell differentiation (adipogenesis) and negative regulation of macrophage-derived foam cell differentiation, pointing to adipocyte development and immune lipid handling as core themes. Additional terms such as cellular response to mechanical stimulus, cell cycle, calcium signaling, and vitamin D response suggest broader roles in signaling and growth that accompany adipogenesis, though the central theme remains adipocyte formation and foam cell regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":8},{"id":"GO:0045444","count":8},{"id":"GO:0007205","count":7},{"id":"GO:0016049","count":7},{"id":"GO:0071260","count":7}]},{"hash":"1372399600044789716","title":"Central metabolism and lipid/quinone biosynthesis","description":"The cluster is dominated by GO terms tied to core energy metabolism and lipid/quinone pathways: glycolytic and TCA cycle activity, beta-oxidation of fatty acids, valine catabolism, and biosynthesis of quinones (menaquinone, phylloquinone) and fatty acids. These points suggest a cohesive module focused on energy production and lipid/quinone biosynthesis, with the antibiotic biosynthetic term likely reflecting context of producer organisms rather than a core function of the cluster.","confidence":"High","size":24,"edges":228,"triangles":1450,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":11},{"id":"GO:0006635","count":9},{"id":"GO:0010124","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0042372","count":8}]},{"hash":"1051676495522791005","title":"Vesicle Exocytosis and GTPase Signaling Regulation","description":"This cluster centers on regulated vesicle trafficking and exocytosis, evidenced by synaptic vesicle priming and acrosome reaction, together with signaling control via GTPases (Ras/Rho, GTPase activity) and lipid signaling (IP3 biosynthesis, phospholipid catabolism). The other terms reflect related secretory and migratory regulation in diverse cells.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002692","count":6},{"id":"GO:0016082","count":6},{"id":"GO:0060313","count":6},{"id":"GO:0007340","count":6},{"id":"GO:0046580","count":6}]},{"hash":"470480572098052044","title":"Lipid signaling and cytoskeletal regulation","description":"Top GO terms point to lipid-mediated signaling (IP3 biosynthesis, phospholipid turnover) and small GTPase regulation (Ras, Rho), plus synaptic organization and immune cell trafficking. This implies a common theme of signaling controlling cytoskeletal dynamics and cell interactions in neural and immune contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002692","count":6},{"id":"GO:0060313","count":6},{"id":"GO:0043314","count":6},{"id":"GO:0060291","count":5},{"id":"GO:0046580","count":5}]},{"hash":"19619736570521130","title":"GPCR-MAPK Signaling and Inflammation","description":"The top GO terms cluster around GPCR-driven signaling pathways that activate ERK/MAPK cascades, including PLC and adenylate cyclase signaling, and intersect with immune responses (defense against bacteria and IL-8 production). This suggests a common theme of GPCR-initiated signal transduction linked to inflammatory/defense processes. A few terms like heart development and learning may reflect pleiotropic roles of signaling components, but the core pattern points to GPCR-MAPK signaling with inflammatory potential.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0042742","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0035625","count":15}]},{"hash":"1150718393458727296","title":"Neuronal excitability and synaptic signaling","description":"The cluster is dominated by GO terms for sodium and potassium ion transmembrane transport, membrane depolarization, and excitatory postsynaptic potential, which highlight neural excitability and synaptic transmission. Additional terms related to receptor internalization and paranodal junction assembly support a neuronal signaling context, while sensory perception of sound and walking behavior align with neural circuit functions. Some terms are broader, but the core pattern fits neurons and synaptic activity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0051899","count":7},{"id":"GO:0071805","count":7},{"id":"GO:2001046","count":7}]},{"hash":"898647033664597821","title":"Thermo-sensory and pain signaling","description":"The cluster\u2019s top GO terms cluster around temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis) and pain perception, with supporting neural processes (regulation of membrane potential, visual learning, operant conditioning) and signaling (adenylate cyclase activation). This pattern points to proteins involved in neural sensing and processing of thermal and nociceptive cues, with broader links to neural plasticity and peripheral responses. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0008542","count":12},{"id":"GO:0040015","count":12}]},{"hash":"245713728000116433","title":"Diverse Transmembrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport of vitamins, xenobiotics, ions (sodium, phosphate, nitrite), and various sugars, as well as neurotransmitter loading into synaptic vesicles. The convergence on membrane transport activity across diverse substrates suggests these proteins are primarily transporters rather than enzymes, transport complexes, or metabolic enzymes. The presence of a vesicular transport term alongside other substrate transports supports a transporter-focused theme, even though there are no interaction edges observed in this dataset.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0035461","count":7},{"id":"GO:0006855","count":7},{"id":"GO:0035725","count":6},{"id":"GO:0035435","count":5},{"id":"GO:1900754","count":5}]},{"hash":"1570651459933638047","title":"Cytoskeleton dynamics and cell migration","description":"Reasoning: The top GO terms cluster around cytoskeletal organization and movement\u2014actin cortical patch assembly, cell migration, and regulation of GTPase activity, with a signaling angle via cellular response to cAMP. While other terms (UDP-sugar metabolism, apoptosis, heart development) appear ancillary, the strongest shared theme is cytoskeletal remodeling and migratory signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0006011","count":4},{"id":"GO:0052573","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0043547","count":3}]},{"hash":"2166121223135363644","title":"Neural learning and fear signaling","description":"The prominent GO terms center on brain-related learning and fear behaviors (behavioral fear response, visual learning, operant conditioning) and associated neuronal signaling pathways (adenylate cyclase activation, serotonin receptor signaling, opsin-mediated signaling), suggesting a cohesive set of proteins involved in neural signaling for learning and fear responses, with some auxiliary roles in neuromodulation and glial signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001662","count":23},{"id":"GO:0008542","count":22},{"id":"GO:0035106","count":22},{"id":"GO:0007190","count":22},{"id":"GO:2000484","count":22}]},{"hash":"838055778077851334","title":"Neuronal synaptic plasticity and calcium signaling","description":"The cluster is enriched for neural signaling and plasticity terms, including long-term potentiation, short-term memory, and regulation of neuronal synaptic plasticity, as well as calcium signaling components (calcium release regulation and Wnt calcium modulation) and astrocyte activation. This combination points to proteins involved in synaptic remodeling and neuron\u2013glia interactions, with a possible link to neurovascular or autonomic regulation. Overall, the dominant theme is neural synaptic plasticity and calcium-dependent signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007223","count":6},{"id":"GO:0002027","count":6},{"id":"GO:0007614","count":6},{"id":"GO:0060291","count":6},{"id":"GO:0043388","count":5}]},{"hash":"1837203236650847038","title":"Rho-regulated neuronal signaling and spine dynamics","description":"The top terms center on Rho protein signal transduction, synaptic vesicle budding, and dendritic spine development, all hallmarks of neuronal signaling and synaptic remodeling. Other terms touch on neuronal excitability (sodium transport) and prostaglandin signaling, supporting a neural-focused theme; a few terms (heart development, locomotion) may reflect broader phenotypes but do not override the core neural/cytoskeletal pattern. Thus the name highlights the dominant neural signaling and spine dynamics theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0071380","count":3},{"id":"GO:0016185","count":3},{"id":"GO:0008344","count":3},{"id":"GO:1901998","count":3}]},{"hash":"2156970281203965363","title":"Cytoskeleton dynamics and cell division","description":"Top GO terms show actin remodeling (Arp2/3 nucleation, actin depolymerization), cell cycle/division, cilium assembly, neuron projection development, and ER-Golgi vesicle transport, all pointing to cytoskeletal regulation and related trafficking. This suggests the proteins group around cytoskeleton dynamics linked to division and ciliogenesis. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000920","count":3},{"id":"GO:0051301","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0030042","count":3}]},{"hash":"801849522386938865","title":"Unknown","description":"The top GO terms cover transcription regulation, immune signaling, muscle and neuronal development, endocytosis, and various signaling pathways, with no single cohesive function tying the proteins together. This diversity suggests no clear shared role for the cluster as a whole.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0035660","count":4},{"id":"GO:0007527","count":4},{"id":"GO:1903861","count":3},{"id":"GO:0043553","count":2}]},{"hash":"684971978273728114","title":"Mitotic division and development processes","description":"Based on the top GO terms, the cluster is enriched for mitosis-related processes (mitotic cell cycle, mitotic spindle assembly) and development-related processes (multicellular organism development, skin development). There are also signals of chromatin modification (histone H4-K16 acetylation) and cytoskeletal remodeling (actin filament depolymerization), which commonly accompany cell division and tissue differentiation. The combination suggests proteins involved in coordinating cell division with developmental programs, hence the label. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043984","count":4},{"id":"GO:0030042","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1982646931770918743","title":"Heart and Craniofacial Development","description":"This cluster is dominated by GO terms related to heart formation and patterning (endocardial cushion EMT, left-right patterning) and craniofacial development (roof of the mouth/palate), as well as cardiovascular regulation (ANP). While there are a few immune or RNA processing terms present, the strongest signals point to cardiovascular and craniofacial organogenesis, justifying the label. ","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0003050","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0032298","count":7},{"id":"GO:0000055","count":7}]},{"hash":"770539683547813297","title":"PERK-UPR Transcriptional Response","description":"Top GO terms indicate a core focus on transcription by RNA polymerase II together with PERK-mediated unfolded protein response and ER stress signaling, suggesting a coordinated transcriptional program driven by ER stress. Additional terms related to immune and metabolic processes (interferon production, NK cell activity, brown fat differentiation) imply broader, context-specific links between UPR signaling and immune/metabolic regulation in this cluster.","confidence":"Medium","size":23,"edges":250,"triangles":1709,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0035470","count":13},{"id":"GO:0006990","count":10},{"id":"GO:0036499","count":10},{"id":"GO:1990440","count":10}]},{"hash":"480207273185867159","title":"Vertebrate Eye and Organ Morphogenesis","description":"The top GO terms cluster around developmental processes, especially eye formation (retina development in camera-type eye; embryonic eye morphogenesis; camera-type eye development) and other organogenesis programs (digestive tract, pituitary gland, osteoblast development, lung morphogenesis, dopaminergic neuron differentiation). This suggests a group of proteins involved in vertebrate embryonic development with a notable emphasis on ocular morphogenesis, hence the label.","confidence":"Medium","size":23,"edges":202,"triangles":939,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0048565","count":6},{"id":"GO:0071542","count":6},{"id":"GO:0060441","count":6}]},{"hash":"2276191188876862299","title":"Neural signaling and brain function","description":"This cluster is dominated by terms related to neural signaling and brain-related processes (visual learning, operant conditioning, serotonin receptor signaling, adenylate cyclase activation, and opsin-mediated signaling), with additional terms pointing to astrocyte activity and autonomic/physiological regulation (blood pressure, enteric smooth muscle differentiation). While there are some immune-related terms (chemotaxis, IL-8 regulation), the central theme appears to be neural signaling and brain function, possibly including neuroimmune interactions.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":14},{"id":"GO:0035106","count":14},{"id":"GO:0007190","count":14},{"id":"GO:2000484","count":14},{"id":"GO:0007208","count":14}]},{"hash":"375577286858927741","title":"Mitochondrial Energy Metabolism and Redox Balance","description":"Among the top GO terms, several point to mitochondrial energy metabolism and redox maintenance\u2014mitochondrial electron transport (NADH to ubiquinone), cell redox homeostasis, and lipoate metabolic process\u2014titting together as core mitochondrial metabolic functions. Thiamine biosynthesis also ties into cofactor-supported metabolism, reinforcing this theme. Some terms appear unrelated (gastrulation, response to lipopolysaccharide), likely reflecting annotation breadth or noise, but the dominant signal supports a mitochondrial energy and redox cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043046","count":7},{"id":"GO:0009228","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0000122","count":6}]},{"hash":"426369376798461611","title":"Vertebrate embryogenesis and organogenesis","description":"The cluster centers on vertebrate embryonic development, with terms for primitive streak formation and multiple organ systems (eye, midbrain, peripheral nervous system, skeletal muscle, lung morphogenesis) plus general transcription regulation during development, indicating coordinated gene expression guiding early development and organ formation.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0090009","count":10},{"id":"GO:0048935","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0006366","count":8}]},{"hash":"900050557588857563","title":"Coagulation, complement, and tissue remodeling","description":"The top terms cluster around immune/coagulation processes (blood coagulation; complement activation via classical and lectin pathways; defense responses to fungus and to LPS) and extracellular matrix remodeling (collagen catabolic process) with angiogenesis. This points to a coherent theme of inflammation-linked coagulation and matrix remodeling, with transcription regulation terms likely incidental. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0007596","count":12},{"id":"GO:0030574","count":11},{"id":"GO:0045766","count":11},{"id":"GO:0050832","count":11}]},{"hash":"1593605055001419827","title":"Polyamine Biosynthesis and Transport","description":"This cluster is dominated by GO terms related to polyamine metabolism: spermidine and putrescine biosynthesis, along with positive regulation of polyamine transmembrane transport, and arginine catabolic inputs. While a few terms (trans-Golgi network organization, kidney development, rRNA methylation) are less directly tied to polyamines, the strongest and most frequent terms point to polyamine production and transport as the core function of the cluster, justifying the label.","confidence":"Medium","size":23,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":6},{"id":"GO:0009089","count":5},{"id":"GO:0045312","count":5},{"id":"GO:0006527","count":5},{"id":"GO:0098629","count":5}]},{"hash":"165133366281451555","title":"Neural Visual Processing and Drug-Response Signaling","description":"This cluster centers on brain- and vision-related functions, with strong signals for visual learning, visual perception, and brain signaling pathways (ERK cascade, GTPase regulation). It also includes behavioral drug responses (morphine, cocaine) and prostaglandin signaling, suggesting a cohesive theme of neural/visual processing linked to behavioral and pharmacological responses. Some terms about brain-renin-angiotensin systems and macrophage chemotaxis indicate broader signaling contexts, but the predominant theme is neural/visual processing and drug-related behavior.","confidence":"Medium","size":23,"edges":163,"triangles":514,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":20},{"id":"GO:0007507","count":20},{"id":"GO:0070374","count":20},{"id":"GO:0002035","count":20},{"id":"GO:0043278","count":20}]},{"hash":"1806525520575401974","title":"Unknown","description":"The top GO terms are diverse, including epoxygenase P450 pathway, phospholipid dephosphorylation, proteolysis, cellular oxidant detoxification, and even development-related terms like myelination and cell budding, with several obsolete terms. This lack of a single cohesive function across the cluster suggests either functionally heterogeneous proteins or noisy annotations, so there isn\u2019t a clear, representative label to assign.","confidence":"","size":23,"edges":228,"triangles":1330,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097755","count":5},{"id":"GO:0019373","count":5},{"id":"GO:0046839","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0055114","count":4}]},{"hash":"756116311501490835","title":"Ribosome biogenesis and translation","description":"The cluster is enriched for multiple ribosome- and translation-related GO terms, including translation, ribosome biogenesis, cytoplasmic translation, and ribosomal subunit assembly/processing of rRNA. This pattern indicates proteins function together in ribosome production and protein synthesis, with some mitochondrial translation involvement, making a coherent \u201cRibosome biogenesis and translation\u201d theme. ","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":20},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0000027","count":3}]},{"hash":"1014462372350301106","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":252,"triangles":1750,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010610","count":20},{"id":"GO:0090503","count":14},{"id":"GO:0010738","count":13},{"id":"GO:0006402","count":13},{"id":"GO:0070935","count":13}]},{"hash":"1231295916479616741","title":"Neuronal splicing and synaptic signaling","description":"The cluster shows strong signals for RNA splicing and its regulation (GO:0000381, GO:0008380) alongside neuronal communication terms (GABA signaling, excitatory postsynaptic potential, sensory perception of sound, conditioned taste aversion, and short-term synaptic plasticity), suggesting a theme centered on neuronal function and its regulation at the RNA level. Some terms like innate immune response and osteoclast proliferation appear less related, indicating some noise but not overriding the main theme.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0048172","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0002158","count":3}]},{"hash":"2298878450064011824","title":"Innate immune signaling and cytokine production","description":"The top GO terms show a clear emphasis on innate immunity, cytokine production, and interferon-related signaling (e.g., innate immune response, cytokine production, IL-2 production, interferon-mediated signaling, Wnt pathway regulation). While there are developmental and signaling components (bone/hard palate development, Wnt and RTK signaling), the dominant theme is immune signaling and cytokine regulation, justifying a label centered on innate immunity. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0060348","count":4},{"id":"GO:0060335","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0060161","count":3}]},{"hash":"772751279224907481","title":"Brain GPCR Signaling and Learning","description":"This cluster centers on GPCR-mediated signaling pathways (adenylate cyclase activation and PLC signaling) and includes neural processes such as visual learning and operant conditioning, suggesting a core theme of neuronal communication and learning. While some terms touch on broader signaling roles (astrocyte chemotaxis, blood pressure regulation), the dominant pattern points to brain-related GPCR signaling and associated learning processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":20},{"id":"GO:0008542","count":19},{"id":"GO:0035106","count":19},{"id":"GO:0007190","count":19},{"id":"GO:2000484","count":19}]},{"hash":"1695708257243480889","title":"Neuronal signaling and locomotor behavior","description":"This cluster centers on neural communication and movement: synaptic transmission terms (excitatory postsynaptic potential, GABA signaling, long-term potentiation), ion transport across membranes (Na+/K+), and behavioral/sensory terms (locomotory behavior, walking, sound detection, conditioned taste aversion). The combination suggests proteins that participate in neuronal signaling pathways that drive locomotion and learned/sensory-driven behaviors.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":12},{"id":"GO:0007626","count":10},{"id":"GO:0035725","count":9},{"id":"GO:0007214","count":9},{"id":"GO:0001661","count":9}]},{"hash":"123388373281254034","title":"Neural development and caveolin-mediated endocytosis","description":"These proteins are enriched for neural developmental terms (lens, cerebellum, cortex, CNS neuron development) and caveolin-mediated endocytosis, pointing to a role in membrane-trafficking processes during brain development. The presence of IL-1 signaling and NK differentiation hints at additional immune-related roles, but the strongest signal is neural development and caveolar endocytosis.","confidence":"Medium","size":23,"edges":216,"triangles":1151,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":23},{"id":"GO:0002088","count":23},{"id":"GO:0021954","count":23},{"id":"GO:0033160","count":23},{"id":"GO:0016477","count":23}]},{"hash":"2213413820776531589","title":"Adhesion and Integrin Signaling in Development","description":"The top GO terms emphasize cell adhesion and integrin-mediated signaling, with heart development as a recurring theme, and are complemented by related processes such as engulfment of apoptotic cells and innate immune responses. This combination points to a cohesive theme of cell\u2013cell and cell\u2013ECM interactions driving developmental remodeling, particularly in cardiovascular contexts, rather than a single isolated function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007155","count":3},{"id":"GO:0010923","count":3},{"id":"GO:0006919","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1467252344316646370","title":"Ribosome biogenesis and cell cycle regulation","description":"The cluster is dominated by GO terms for ribosome biogenesis (including ribosomal large subunit biogenesis), DNA-templated transcription, and cell division, which together point to a nucleolar/nuclear program coordinating protein synthesis capacity with cell growth and division. Additional terms related to chromatin modification (histone acetylation/deacetylation) and metabolism (SREBP signaling) may reflect broader regulatory context but do not overturn the central theme of ribosome production coupled with transcriptional control and cell cycle progression.","confidence":"Medium","size":23,"edges":6,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000747","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0042273","count":5},{"id":"GO:0006351","count":5}]},{"hash":"633270614082408885","title":"Mitochondrial stress responses and metabolism","description":"The items are enriched for stress responses ( xenobiotic, hypoxia, hydrogen peroxide, estradiol ) and redox/mitochondrial processes (cytochrome c release) plus metabolic pathways (oxaloacetate, glucose, polyamines) and tissue repair. Taken together, this suggests a mitochondrial stress-response and metabolic adaptation program rather than a single signaling axis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0032355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006596","count":2}]},{"hash":"963985373307634150","title":"Transmembrane Transporters for Ions and Metabolites","description":"This cluster centers on diverse transmembrane transport activities, covering ions (phosphate, sodium, potassium, nitrite, nitrate) and metabolites (vitamins, sialic acid, xenobiotics, 4-hydroxyphenylacetate, etc.). The GO terms consistently describe membrane transport functions, indicating a family of transport proteins that move various substrates across membranes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0006855","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3}]},{"hash":"2251746415843270693","title":"Lymphocyte Homeostasis and Immune Regulation","description":"The top GO terms indicate maintenance of B and T cell populations (B cell homeostasis, T cell homeostasis) and modulation of T cell activity (negative regulation of activated T cell proliferation, T cell proliferation), along with innate immune response and spleen development. While there are a few general cellular processes listed (peroxisomal protein import, ubiquitin-dependent ERAD), the dominant signal is coordinated regulation and maintenance of lymphocytes and immune function, justifying a label focused on lymphocyte homeostasis and immune regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001782","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0046007","count":3}]},{"hash":"394363886408474420","title":"Endomembrane Vesicle Trafficking","description":"The top GO terms point to vesicle and organelle transport (endosome to lysosome, Golgi to plasma membrane, endosome maturation, and intracellular distribution of mitochondria) and related exocytic regulation, suggesting the proteins cluster around endomembrane vesicle trafficking. While a few terms (e.g., ribosomal export, mitotic cycle) may be ancillary, the dominant pattern is intracellular transport pathways.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":4},{"id":"GO:0000056","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0045022","count":3},{"id":"GO:0008333","count":3}]},{"hash":"1964024306249058745","title":"Keratinocyte differentiation and skin barrier","description":"The dominant GO terms point to epidermal differentiation\u2014establishment of the skin barrier, cornification, and keratinocyte activation\u2014alongside hair cycle processes, indicating a cluster of proteins involved in keratinized tissue formation and protection. Some terms (lens fiber development, muscle contraction, retrograde transport) are peripheral annotations, but the core signal supports epidermal barrier formation and keratinization. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061436","count":2},{"id":"GO:0055015","count":2},{"id":"GO:1904714","count":2},{"id":"GO:0042633","count":2},{"id":"GO:0032980","count":2}]},{"hash":"1930256979196197310","title":"Energy Metabolism and Translation","description":"The cluster centers on protein synthesis and energy production: translation (including mitochondrial translation) paired with proton motive force\u2013driven ATP synthesis, ion transport, and related biosynthetic processes (folate and cobalamin). This suggests a coherent theme of energy metabolism coupled to translation, with some peripheral bacterial/metabolic pathway signals contributing to the overall pattern.","confidence":"Medium","size":23,"edges":244,"triangles":1590,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0016049","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0032543","count":2}]},{"hash":"940673397946304912","title":"Ribosome Biogenesis Machinery","description":"The top terms cluster around ribosome biogenesis and ribosomal large subunit biogenesis, with supporting terms for protein assembly and cell growth, suggesting this set comprises proteins involved in ribosome assembly and related protein synthesis processes. Some secondary terms (ER\u2013Golgi transport, transcription elongation, DNA repair) reflect broader cellular housekeeping but do not override the ribosome-focused signal. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0042273","count":3}]},{"hash":"1793792704752420746","title":"Neural Sensory Perception and Signaling","description":"The cluster is dominated by GO terms tied to sensory perception (pain, visual), visual learning, and neural-driven behavioral responses (e.g., to cocaine), all pointing to neural sensory processing and signaling. Additional terms reflect signal transduction and phosphorylation (ERK cascade, protein phosphorylation), supporting a theme of neural signaling pathways. Some terms (heart development, prostaglandin response, macrophage chemotaxis) may reflect broader, pleiotropic signaling roles, but the core pattern centers on neural sensory function and signaling networks.","confidence":"Medium","size":23,"edges":85,"triangles":32,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0071380","count":15},{"id":"GO:0008542","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0071502","count":14}]},{"hash":"1234688307689711877","title":"Detoxification and oxidative stress response","description":"The cluster overwhelmingly features detoxification and redox-related processes (glutathione metabolism, cellular oxidant detoxification, toxin catabolic process) along with metabolic stress responses (response to starvation, regulation of growth) and DNA repair (nucleotide-excision repair). This combination points to a cohesive theme of cellular defense and maintenance under stress, including detox and oxidative balance, with some involvement in signaling and repair. ","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":22},{"id":"GO:0009407","count":22},{"id":"GO:0014810","count":22},{"id":"GO:0009072","count":22},{"id":"GO:0006749","count":22}]},{"hash":"1088226508193321289","title":"Podosome Formation and Actin Cytoskeleton Remodeling","description":"The cluster is dominated by GO terms for actin cytoskeleton dynamics and adhesion structures, including Rho-regulated cytoskeleton remodeling, podosome and filopodium assembly, and integrin signaling, with related hints at morphogenesis, all pointing to a module of actin-driven adhesion and protrusive structures.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0031532","count":10},{"id":"GO:0071560","count":9},{"id":"GO:0071803","count":9},{"id":"GO:0007229","count":9}]},{"hash":"1908553596140346591","title":"Neural development and signaling regulation","description":"This cluster is dominated by terms related to neural development (neuron development, cerebellar cortex formation) and major signaling pathways (Wnt, Hippo), with accompanying processes like apoptosis and proteasomal regulation, suggesting a cohesive theme around neural development and cell fate signaling.","confidence":"Medium","size":23,"edges":137,"triangles":374,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032435","count":16},{"id":"GO:0048666","count":16},{"id":"GO:0033160","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0060044","count":14}]},{"hash":"2248876295090574564","title":"Developmental signaling and cell migration","description":"It is enriched for GO terms related to heart and placenta development, as well as cell migration and related signaling (PI3K/AKT, GPCR desensitization) and hyaluronan metabolism, indicating a module that coordinates tissue development and cell movement.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043491","count":19},{"id":"GO:0001893","count":19},{"id":"GO:0016477","count":19},{"id":"GO:2001275","count":19},{"id":"GO:0010763","count":19}]},{"hash":"562141134768312844","title":"Bacterial lipid and cell-envelope biosynthesis with sporulation","description":"The top GO terms are dominated by lipid- and cell-wall-related biosynthetic processes (lipopolysaccharide, very long-chain fatty acids, mycolic acids) and related lipid metabolism, with additional signals of antibiotic biosynthesis/response and sporulation. This pattern points to a bacterial module focused on cell-envelope biogenesis and development, rather than a single narrow pathway, with antibiotic-related terms reflecting secondary metabolism common in actinobacteria. The combination of envelope lipid synthesis and sporulation supports a cohesive bacterial functional theme.","confidence":"Medium","size":23,"edges":47,"triangles":120,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0017000","count":8},{"id":"GO:0042619","count":8},{"id":"GO:0030435","count":6},{"id":"GO:0009103","count":6}]},{"hash":"2025215568237525214","title":"Cell Migration and Lamellipodium Assembly","description":"The cluster's top GO terms are dominated by cell motility, actin-based protrusions, and related signaling (cell migration, lamellipodium assembly, Wnt signaling). This suggests proteins cofunction in cytoskeletal dynamics and movement; telomere-related terms appear but are less central to the core function represented here.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0016055","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0030032","count":3},{"id":"GO:1904908","count":3}]},{"hash":"1951876364099539619","title":"Actin Cytoskeleton and Muscle Contraction","description":"This cluster centers on actin-based structures and muscle function: actin filament bundle and contractile ring assembly, muscle attachment, calcium-regulated muscle contraction, and Rho-mediated cytoskeletal signaling, pointing to actin remodeling linked to contraction and cell division rather than a single signaling pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070493","count":3},{"id":"GO:0014894","count":2},{"id":"GO:1903477","count":2},{"id":"GO:0016203","count":2},{"id":"GO:0014809","count":2}]},{"hash":"1902191682283567351","title":"Complex lipid biosynthesis and antibiotic response","description":"The cluster is dominated by lipid metabolism terms: very long-chain fatty acid biosynthesis, fatty acid elongation, sphingolipid and retinoid metabolism, and specifically mycolic acid biosynthesis, indicating a lipid-centric functional theme. The presence of antibiotic-related terms (response to antibiotic, antibiotic biosynthetic process) suggests links to antimicrobial interactions. Together, these indicate a cohesive group of proteins involved in complex lipid biosynthesis with ancillary antibiotic response functions.","confidence":"High","size":23,"edges":157,"triangles":434,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":19},{"id":"GO:0008207","count":17},{"id":"GO:0046677","count":17},{"id":"GO:0042761","count":17},{"id":"GO:0042572","count":17}]},{"hash":"1796169278748389338","title":"Innate Immune Recognition and Activation","description":"Most of the top GO terms center on innate immunity and leukocyte interactions: complement activation (classical pathway), innate immune response, T cell costimulation, NK cell regulation, and detection of lipoteichoic acid, plus coreceptor-mediated virion attachment. This points to proteins involved in pathogen sensing, immune signaling, and cell cooperation in defense. Some adhesion terms (heterophilic cell-cell adhesion) support immune cell interactions, while a few terms reference adipose or cardiac regulation, which may reflect broader pleiotropy rather than core function of the cluster.","confidence":"Medium","size":23,"edges":18,"triangles":4,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0070392","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0070352","count":5}]},{"hash":"1302072897476944632","title":"Mitosis and Cytokinesis Machinery","description":"Top terms show a strong focus on cell division, mitotic cell cycle progression, and cytokinesis (division septum assembly). These signals indicate a coherent cluster of proteins involved in mitotic progression and cytokinesis, with smaller hints of differentiation or mating-associated processes that are less representative. This makes a clear theme around mitosis/cytokinesis as the primary function of the cluster.","confidence":"High","size":23,"edges":10,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0051291","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0010458","count":5},{"id":"GO:0000917","count":5}]},{"hash":"1864131070356660225","title":"GPCR-cAMP Signaling in Vascular and Immune Regulation","description":"The top GO terms cluster around GPCR-mediated signaling that activates adenylate cyclase and raises cAMP, including dopamine receptor pathways, which ties to vascular effects (positive regulation of blood pressure) and prostaglandin responses, as well as immune modulation (neutrophil chemotaxis, TNF production). While terms like electron transport and visual learning appear, the core theme is GPCR-cAMP signaling influencing vascular tone and immune responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0007191","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0008283","count":10},{"id":"GO:0022900","count":10}]},{"hash":"1069054888715477292","title":"Vascular inflammation and coagulation","description":"The terms cluster around blood coagulation, inflammatory response, LPS response, and vascular regulation (vasoconstriction, blood pressure), with related GPCR signaling and pain perception, plus remodeling-related terms like bone remodeling and proteoglycan biosynthesis, suggesting a theme of immune-driven coagulation and extracellular matrix remodeling in vascular contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0032496","count":5},{"id":"GO:0018146","count":5},{"id":"GO:0006954","count":4},{"id":"GO:0045907","count":4}]},{"hash":"639446714688385988","title":"Immune signaling and NF-kappaB regulation","description":"This cluster\u2019s terms center on innate immunity (lipopolysaccharide response, innate immune response) and adaptive signaling (T cell and B cell receptor signaling), with NF-kappaB transcription factor regulation. Together they suggest a cohesive theme of immune activation and inflammation, even though the network shows no observed edges. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0050852","count":2}]},{"hash":"501684118712632021","title":"Cellular stress response and RNA processing","description":"The top GO terms point to responses to various stresses (glucose starvation, LPS, xenobiotic stimuli) and stress-related apoptotic signaling, suggesting a stress-response role. Concurrent RNA processing terms (mRNA capping and deadenylation) imply regulation of gene expression during stress. Some peripheral terms (cardiac regulation, renal transport) are less central, but the core theme centers on stress response and RNA maturation. Confidence: Medium.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0055118","count":3},{"id":"GO:0031397","count":3},{"id":"GO:0000289","count":2}]},{"hash":"947624881871949903","title":"Embryogenesis and organogenesis","description":"The cluster\u2019s terms cluster around developmental processes across multiple tissues (placental lineage, heart EMT, left-right patterning, cartilage, pancreatic endocrine development, and endocrine system formation), with supporting regulatory processes like transcriptional control and mRNA splicing. This points to a general theme of embryonic development and organ formation rather than a single specific pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0060806","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0000398","count":6}]},{"hash":"1908922785020791416","title":"Ubiquitin-Proteasome Proteolysis and Circadian Regulation","description":"The strongest signals are ubiquitin-dependent protein catabolic processes and SCF-dependent proteasomal degradation, plus regulation of circadian rhythm. These terms indicate a cluster centered on proteostasis through the ubiquitin-proteasome system, with temporal (circadian) control, and supportive developmental/context terms (e.g., oocyte maturation, brain development) that fit proteolytic regulation during growth and differentiation. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":13},{"id":"GO:1903378","count":10},{"id":"GO:0031146","count":9},{"id":"GO:0008285","count":9}]},{"hash":"928810857257159768","title":"Ubiquitin-Dependent Innate Antiviral Signaling","description":"The top GO terms point to ubiquitin-dependent proteolysis and innate antiviral immunity, including NF-kappaB activation and JNK cascade regulation, indicating a cluster of proteins coordinating ubiquitin-mediated signaling in response to viral infection. A V(D)J recombination term appears but likely reflects shared ubiquitin-related regulation rather than adaptive immunity; thus the dominant theme is ubiquitin-driven innate antiviral defense.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0045087","count":11},{"id":"GO:0051607","count":11},{"id":"GO:1901253","count":8},{"id":"GO:0085020","count":8}]},{"hash":"69040401886187840","title":"Ubiquitin-Dependent Antiviral Innate Immunity","description":"This cluster centers on ubiquitin-related processes (ubiquitination, ubiquitin-dependent protein catabolic/ERAD pathways) and innate antiviral defense (innate immune response, defense against virus), with components linked to NF-kappaB signaling (activation of NF-kappaB-inducing kinase). The convergence of ubiquitin turnover and antiviral signaling suggests a coherent theme of ubiquitin-mediated immune responses to viral threats, even though a few terms like cell division are tangential. Overall, the proteins appear to coordinate ubiquitin-dependent proteostasis with innate antiviral signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045087","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0051607","count":6}]},{"hash":"1724823067237524857","title":"Developmental cell migration and apoptosis regulation","description":"This cluster features GO terms tied to cell migration and epithelial polarity (cell migration, establishment of epithelial cell polarity, radial glia guided migration of Purkinje cell) alongside multiple apoptosis-related processes across cell types (negative regulation of extrinsic apoptotic signaling, myeloid/hepatocyte apoptotic processes, etc.). The co-occurrence suggests proteins involved in developmental programs where cell movement and survival are coordinated, with additional roles in RNA processing that may support gene expression during differentiation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001240","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1092822727754768781","title":"Unknown","description":"The top GO terms span lipid metabolism (cholesterol and farnesyl diphosphate biosynthesis), cell cycle/division, signaling (insulin receptor pathway), immune proliferation, and several unrelated processes (stomatal opening, lactation, vitamin E response). The terms point to diverse, non-cohesive functions rather than a single shared theme, so there is no clear representative function for this cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0045337","count":3},{"id":"GO:2001165","count":2},{"id":"GO:0007595","count":2}]},{"hash":"1511097819125544489","title":"Unknown","description":"The proteins appear to be associated with a highly diverse set of processes, including fibrinolysis, Wnt signaling, neuronal differentiation, mRNA processing and stability, heat/stress responses, and general intracellular signaling. There is no single unifying function or pathway that ties the majority of terms together, and the lack of a cohesive theme suggests this cluster does not represent a specific, shared biological process.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001275","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0016049","count":4},{"id":"GO:0016055","count":4}]},{"hash":"378991682419652606","title":"Unknown","description":"The top GO terms span highly diverse tissues and processes (eye lens development, kidney tubule development, salt and water balance, various transport processes, fungal spore formation, tooth development, and retinoic acid response). There is no clear shared function or cohesive biological theme among the terms, and the cluster has no edges, so a single representative function cannot be inferred.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002088","count":2},{"id":"GO:0035377","count":2},{"id":"GO:0072014","count":2},{"id":"GO:0071472","count":2},{"id":"GO:0072489","count":2}]},{"hash":"475838146936934265","title":"Developmental transcriptional regulators","description":"The cluster shows strong enrichment for transcription-related GO terms (DNA-templated transcription, negative regulation of transcription by RNA Pol II, preinitiation complex assembly) alongside several tissue- and organ-development terms (Harderian gland, trachea cartilage, outflow tract morphogenesis, endocardial differentiation, chondrocyte differentiation, male gonad development). This pattern suggests proteins that regulate gene expression during development and organogenesis.","confidence":"Medium","size":22,"edges":123,"triangles":313,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:1902894","count":10},{"id":"GO:0000122","count":9},{"id":"GO:2000020","count":9},{"id":"GO:0017055","count":9}]},{"hash":"703670023961218094","title":"Eye and neural development","description":"This cluster is dominated by retina/eye morphogenesis terms (retina development, camera-type eye development, embryonic eye morphogenesis) and neural differentiation terms (GABAergic interneuron differentiation, motor neuron fate specification), with additional transcription regulation terms, pointing to a vertebrate eye\u2013neural development program.","confidence":"High","size":22,"edges":226,"triangles":1442,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0060041","count":10},{"id":"GO:0002087","count":10},{"id":"GO:0002076","count":10},{"id":"GO:0000122","count":6}]},{"hash":"240951951080697177","title":"Neural and craniofacial development","description":"The proteins map to vertebrate developmental processes, with strong representation of neural development (brain, cerebellum, retina, motor neuron axon guidance, neural crest migration) and craniofacial morphogenesis (roof of mouth), plus related organogenesis (lung morphogenesis, gonad development). This indicates a cohesive module involved in neural and craniofacial patterning, underpinned by transcriptional regulation in development. ","confidence":"High","size":22,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0007338","count":8},{"id":"GO:0008584","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0021549","count":6}]},{"hash":"720228416395998995","title":"Developmental transcription regulation","description":"This cluster is dominated by GO terms about regulating transcription (e.g., negative regulation of transcription by RNA polymerase II, regulation of DNA-templated transcription) and broad developmental processes across tissues (midbrain, pituitary, male gonad, gastrulation, multicellular organism development). While there is a note of an immune response term (response to lipopolysaccharide) in the mix, the prevailing signal links transcriptional control to developmental programs, suggesting these proteins function together in developmental gene regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0007568","count":6},{"id":"GO:0043046","count":6}]},{"hash":"523158769551996547","title":"Motor neuron development and axon guidance","description":"This cluster is dominated by GO terms related to motor neuron formation, migration, and axon guidance (lateral motor column neuron migration, motor neuron axon guidance, peripheral nervous system neuron axonogenesis, spinal cord association neuron differentiation), with supporting cell-adhesion terms. Although a few terms appear unrelated, the core pattern points to neural development and wiring of motor neurons.","confidence":"High","size":22,"edges":133,"triangles":258,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":12},{"id":"GO:0008045","count":12},{"id":"GO:0007160","count":12},{"id":"GO:0048936","count":12},{"id":"GO:0070527","count":12}]},{"hash":"22743147541314128","title":"Neuronal microtubule dynamics and transport","description":"The cluster is dominated by GO terms tied to microtubule behavior (spindle orientation/assembly, plus/minus end depolymerization, regulation of microtubule-based processes) and neuronal transport (anterograde dendritic transport of receptor complexes), with a note on cerebellar granular layer structural organization. This points to a cohesive theme around microtubule regulation driving neuronal transport and structure.","confidence":"High","size":22,"edges":186,"triangles":942,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0051296","count":22},{"id":"GO:0060404","count":22},{"id":"GO:0098971","count":22},{"id":"GO:0021685","count":22},{"id":"GO:0051255","count":22}]},{"hash":"1390987668426820664","title":"Ubiquitin-regulated innate immune signaling","description":"The cluster is enriched for innate immune response and defense against virus terms, plus several ubiquitination and NF-kappaB\u2013related processes, indicating proteins that regulate antiviral signaling through ubiquitin modification, transcriptional control, and apoptosis pathways.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0051607","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0043123","count":6}]},{"hash":"1473813194368043817","title":"Thymic T cell development and transcriptional regulation","description":"The top GO terms center on thymus-related processes and T cell tolerance (central and peripheral tolerance, thymus epithelium morphogenesis) with additional signals of transcriptional regulation (negative regulation of transcription by RNA Pol II) and chromatin-related activity. While spindle assembly and telomere maintenance hint at proliferative cell cycles, the dominant themes point to thymic T cell maturation and immune tolerance, suggesting this cluster is best described by T cell development with transcriptional control. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0051225","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0002509","count":3},{"id":"GO:2000584","count":3}]},{"hash":"1588191932978218466","title":"Ubiquitin-Mediated Regulation of Immune Signaling and Chromatin","description":"The cluster is dominated by GO terms tied to ubiquitination and ubiquitin-dependent proteolysis (including K6-linked ubiquitination and autoubiquitination), as well as innate and adaptive immune responses, and chromatin-related processes (subtelomeric heterochromatin formation and histone catabolic process). This combination points to a cohesive module where ubiquitin signaling controls immune responses and chromatin dynamics, with JNK pathway regulation linking stress signaling to these processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006348","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0085020","count":4},{"id":"GO:0046328","count":4}]},{"hash":"1369482123434893514","title":"Developmental signaling and cell cycle control","description":"The cluster is enriched for multicellular organism development terms (including forebrain and skin development) and for mitotic cell cycle and regulation of kinase and GTPase activities, suggesting proteins involved in developmental signaling that coordinates proliferation and differentiation. While there are also terms tied to mRNA transport and rRNA maturation, the dominant theme points to development-associated signaling and cell-cycle regulation. ","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":13},{"id":"GO:0000278","count":12},{"id":"GO:0030900","count":11},{"id":"GO:0071902","count":11},{"id":"GO:0071456","count":11}]},{"hash":"2090142554756742831","title":"Inflammatory Signaling and Macrophage Activation","description":"These terms cluster around TNF-mediated inflammatory signaling, macrophage activation, IL-8 production, prostaglandin regulation, ERK cascade, and lipid mediator remodeling, consistent with an immune/inflammatory module focused on macrophage responses.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0044240","count":1},{"id":"GO:0050830","count":1},{"id":"GO:0032308","count":1}]},{"hash":"1073778240168632572","title":"Developmental Signaling Pathways","description":"This cluster mixes organ development terms (heart development, thymus development, hard palate development) with diverse signaling pathways (T cell receptor signaling, insulin receptor signaling, regulation of Rho GTPase signaling, PI3K activity) and a cellular response to nitric oxide. The common thread appears to be signaling networks that influence development and tissue formation, rather than a single, unified process. Therefore, a concise label is Developmental Signaling Pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0060022","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0008286","count":4}]},{"hash":"1826627461579528799","title":"Ribosome biogenesis and translation initiation","description":"The cluster shows strong enrichment for rRNA processing (LSU and 5.8S), ribosome biogenesis, and translation initiation steps (preinitiation complex formation, translation reinitiation) plus rRNA methylation, pointing to ribosome assembly and initiation of protein synthesis as the core function; a few host interaction terms appear as outliers.","confidence":"High","size":22,"edges":121,"triangles":362,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0036265","count":4}]},{"hash":"316198953252421602","title":"RNA processing and translation regulation","description":"This cluster is enriched for GO terms spanning mRNA maturation (polyadenylation, splicing via spliceosome), regulation of splicing, mRNA stability in stress, and translation initiation/reinitiation (including IRES-dependent and preinitiation complex formation), indicating a cohesive theme around post-transcriptional RNA processing and translation control.","confidence":"High","size":22,"edges":172,"triangles":697,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0075522","count":9}]},{"hash":"1280400456727749154","title":"RNA processing and translation initiation","description":"Based on the top GO terms, the cluster is enriched for translation reinitiation and formation of the translation preinitiation complex, plus multiple spliceosome-mediated mRNA processing terms (splicing, cis splicing, regulation of splicing). This points to a shared function in RNA maturation and prepping transcripts for translation. Brain development and ER-to-Golgi transport terms may reflect contextual roles, but the dominant signal anchors the cluster to RNA processing and initiation of protein synthesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0006888","count":6}]},{"hash":"23306973968451987","title":"ERAD and Proteostasis Regulators","description":"This cluster shows strong representation of GO terms tied to ubiquitin-mediated protein quality control in the ER, including deubiquitination and ERAD pathways, and tail-anchored protein insertion into the ER membrane. Some terms reflect broader signaling or neuronal regulatory roles, but the dominant theme is ER proteostasis and ubiquitin-dependent degradation. Hence the label ERAD and Proteostasis Regulators.","confidence":"High","size":22,"edges":226,"triangles":1445,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":9},{"id":"GO:1904378","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0021888","count":6},{"id":"GO:0034140","count":6}]},{"hash":"2133948047946141077","title":"Neuronal guidance and cytoskeletal remodeling","description":"The prominent GO terms include nervous system development and multiple guidance pathways (Roundabout, Smoothened/Hedgehog) and axon guidance, plus actin cytoskeleton reorganization and filopodium assembly. The presence of regulation of fibroblast migration and protein localization to endosome suggests involvement of migratory signaling and intracellular trafficking that couple signaling to cytoskeletal changes. Taken together, these terms point to a module coordinating neural development signals with cytoskeletal dynamics and cell migration.","confidence":"High","size":22,"edges":73,"triangles":40,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0050852","count":5},{"id":"GO:0007224","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0035385","count":5}]},{"hash":"1411382965956385028","title":"Embryonic organogenesis and patterning","description":"This cluster centers on embryonic development across multiple tissues (pancreatic, endocrine, cartilage, left\u2013right patterning, inner ear, placenta/trophoblast) with regulatory transcription control, indicating a broad role in organogenesis and tissue morphogenesis rather than a single tissue function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":5},{"id":"GO:1900212","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0003198","count":4}]},{"hash":"405484102797010342","title":"Cytoskeleton remodeling and membrane trafficking","description":"The cluster is enriched for GO terms tied to cytoskeletal dynamics and cell movement, including hemocyte migration, positive regulation of lamellipodium and podosome assembly, and microvillus assembly. It also features processes related to membrane targeting and intracellular transport, such as positive regulation of protein localization to the plasma membrane and intracellular protein transport, suggesting a shared theme of cytoskeleton-driven movement and trafficking during cellular remodeling. Some developmental terms (spermatid and bone development) may reflect broader cytoskeletal roles in development, but the dominant signal points to cytoskeleton remodeling and membrane trafficking as the common function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035099","count":2},{"id":"GO:0032534","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0010592","count":2}]},{"hash":"1436261901011475523","title":"GPCR-mediated cardiovascular and prostaglandin signaling","description":"The top GO terms cluster around heart development, vasoconstriction, response to prostaglandin E, GPCR internalization, and ERK signaling with calcium mobilization, all pointing to GPCR-driven signaling in cardiovascular tissues and prostaglandin/hormonal regulation. Some terms like LPS response and prepulse inhibition hint at broader signaling cross-talk, but the core theme remains GPCR-mediated cardiovascular signaling and prostaglandin response.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0071380","count":7},{"id":"GO:0002031","count":7},{"id":"GO:0048609","count":5}]},{"hash":"754519311999571644","title":"NF-kappaB-driven immune activation","description":"Top GO terms consistently point to NF-kappaB signaling and transcription factor activity regulation, along with innate immune response and complement activation, plus B cell activation and monocyte chemotaxis. This indicates a cluster centered on NF-kappaB\u2013driven immune activation. A couple of developmental terms (heart development, neuron migration) are less clearly connected to the core function, suggesting some annotation noise or broader roles, but the dominant theme remains immune signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0006919","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0007507","count":2}]},{"hash":"2010997105656843472","title":"Mitosis and cell cycle progression","description":"The top GO terms are dominated by G1/S transition of the mitotic cell cycle and cell division, suggesting the proteins in this cluster principally relate to cell cycle entry and mitosis. Other terms are diverse and less central, but do not override the core mitotic theme.","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0033197","count":4},{"id":"GO:0032516","count":4},{"id":"GO:0007595","count":3}]},{"hash":"1285072455735448448","title":"Vesicle trafficking and signaling","description":"The top GO terms point to intracellular transport routes (Golgi to plasma membrane, CVT pathway autophagy targeting) and broad signaling cascades (ERK1/2), with additional neuronal and cardiac signaling processes (axon guidance, GABAergic transmission, heart contraction). This suggests a core theme of coordinating vesicle trafficking with signal transduction across diverse cellular contexts.","confidence":"Medium","size":22,"edges":87,"triangles":72,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0006893","count":5},{"id":"GO:0032258","count":4},{"id":"GO:0050852","count":4}]},{"hash":"281532008796548390","title":"Organ Development and Signaling","description":"This cluster shows enrichment in organ development terms (heart, kidney, spermatid development) alongside regulatory signaling processes such as GTPase/Rho pathways and cell adhesion, suggesting proteins involved in coordinating tissue development and intercellular signaling across different systems.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0043547","count":4},{"id":"GO:1900042","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1863768382226688166","title":"Osteogenesis and actin cytoskeleton remodeling","description":"Dominant themes are bone development and osteoblast differentiation alongside actin cytoskeleton remodeling (actin filament organization, lamellipodium/podosome assembly). This clustering suggests proteins involved in osteogenesis that rely on dynamic actin structures and cell migration/adhesion, potentially coordinating skeletal formation. Some transport terms appear but likely reflect general intracellular trafficking accompanying these processes. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0035646","count":3},{"id":"GO:0030032","count":2},{"id":"GO:1904179","count":2},{"id":"GO:0060348","count":2}]},{"hash":"274966005123134490","title":"Cytoskeletal signaling in immune and neural contexts","description":"The cluster is enriched for Rho signaling regulation, actin crosslink formation, and immune receptor pathways (B cell signaling, IL-2 production), plus neuron projection development terms, suggesting a focus on cytoskeletal remodeling driving signaling in immune and neural cells, despite a few broader pathway terms.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0035855","count":4},{"id":"GO:0007155","count":4},{"id":"GO:1900042","count":4}]},{"hash":"1611407642118795976","title":"Rho GTPase\u2013driven actin remodeling and cell migration","description":"The proteins are enriched for Rho-family GTPase signaling and actin dynamics terms, including positive regulation of GTPase activity, small GTPase-mediated signaling, regulation of Rho signaling, actin cytoskeleton organization, filopodium and actin bundle assembly, cell migration, and cell spreading, plus polarity and heart development hints. This suggests a cohesive module controlling actin-driven protrusions, adhesion, and movement via Rho GTPases.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0007264","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0030036","count":6},{"id":"GO:0007507","count":5}]},{"hash":"1903111041652534805","title":"RNA splicing and post-transcriptional regulation","description":"The top terms cluster around post-transcriptional control: mRNA splicing (including spliceosome-mediated and alternative splicing), mRNA export, and mRNA stability under stress, along with translational regulation via IRES initiation and miRNA silencing. This points to a cohesive group of proteins involved in mRNA processing, maturation, export, and translation control, especially under stress conditions.","confidence":"High","size":22,"edges":117,"triangles":186,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":16},{"id":"GO:0006378","count":16},{"id":"GO:0006376","count":15},{"id":"GO:0075522","count":15},{"id":"GO:0000381","count":15}]},{"hash":"1894981517739225639","title":"Auditory and vestibular neural development and myelination","description":"This cluster\u2019s top terms emphasize neural development in the ear's sensory pathways: axonal fasciculation, synapse assembly, sensory perception of sound, otolith morphogenesis, and myelination. Together they point to wiring and maturation of hearing/balance neurons and ear structure formation, with some signaling terms (like I\u03baB phosphorylation) that may modulate these processes. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0045087","count":2}]},{"hash":"1892766158181595146","title":"T cell costimulation and immune regulation","description":"The label fits because the dominant GO terms point to T cell costimulation, IL-2 production, and regulatory control of T cell and NK cell activities, along with cell adhesion processes that facilitate immune synapse formation. A minor lens morphogenesis term appears as annotation noise rather than functional relevance.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0046814","count":6},{"id":"GO:0002859","count":6}]},{"hash":"1018258896343757102","title":"RNA Splicing and Post-Transcriptional Regulation","description":"The top GO terms are dominated by RNA processing and post-transcriptional control, including splice site recognition and regulation of alternative splicing, mRNA export, mRNA stability in response to stress, IRES-dependent translation, and miRNA-mediated translation inhibition. This suggests the proteins function mainly in RNA maturation and control of gene expression after transcription, rather than upstream transcriptional regulation or enzyme activities. Some related terms about mechanosensing or neuromuscular balance appear peripheral to this core theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0006376","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0010610","count":3}]},{"hash":"1326638321700623947","title":"Neurotransmission and Brain Development","description":"Top terms center on neurotransmission (glycine secretion, dopamine uptake and catabolism, serotonin uptake) and brain development (thalamus, adenohypophysis), with related processes like perineurial glial growth and amino acid transport, pointing to a cluster of proteins involved in neural signaling and brain development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905847","count":5},{"id":"GO:0061537","count":5},{"id":"GO:0021794","count":5},{"id":"GO:0051610","count":5},{"id":"GO:0042066","count":5}]},{"hash":"63279439116820963","title":"Ubiquitin-Dependent Proteostasis and Signaling","description":"Based on the top GO terms, the cluster centers on ubiquitin-dependent protein catabolic processes, ubiquitination (including K6-linked), ER-associated degradation, and links to apoptosis and TNF-mediated signaling, with some histone turnover terms. This pattern suggests proteins involved in proteostasis via the ubiquitin-proteasome system and related stress/immunity signaling pathways, rather than a single narrow function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:1903721","count":8},{"id":"GO:0070512","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0042981","count":8}]},{"hash":"2191171719699720116","title":"Ubiquitin-Mediated Degradation and Immune Signaling","description":"Top GO terms indicate strong emphasis on ubiquitin-dependent proteolysis (ERAD, autoubiquitination, K6/K63 linkages) with connections to innate immunity and inflammatory signaling (TNF, JNK, antiviral defense). This suggests a coherent theme of ubiquitin-regulated protein turnover that modulates immune responses, hence the label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":8},{"id":"GO:0036205","count":8},{"id":"GO:0085020","count":8}]},{"hash":"1583985718580230566","title":"Angiogenesis Regulation and Endothelial Signaling","description":"Top GO terms are dominated by regulation of GTPase activity, I-kappaB phosphorylation, and multiple endothelial signaling pathways (cell surface receptor tyrosine kinase signaling, VEGF signaling regulation, and thrombin-activated receptor signaling) along with collagen fibril organization. Together these point to a functional cluster involved in controlling angiogenesis and endothelial cell responses, with associated extracellular matrix remodeling. The presence of GTPase regulation hints at cytoskeletal and migratory processes relevant to vessel formation, supporting a cohesive theme around vascular signaling and angiogenesis rather than disparate functions.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0043087","count":5},{"id":"GO:0007252","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0016525","count":5}]},{"hash":"108028993789690944","title":"Transcription Regulation and RNA Processing","description":"Most terms cluster around gene expression control and RNA processing: negative regulation of transcription by RNA polymerase II, DNA-templated transcription, and mRNA capping, along with peptidyl-lysine methylation and ubiquitin-dependent proteolysis linked to chromatin dynamics and transcription factor turnover. Some metabolic biosynthesis terms appear as outliers, but the core signal points to transcription regulation and RNA processing.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0006370","count":3},{"id":"GO:0009236","count":3}]},{"hash":"99036522252204848","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination and proteasome-dependent protein catabolism (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, ERAD pathway). This points to a cohesive role in tagging substrates for degradation and proteasome turnover, i.e., ubiquitin-proteasome\u2013mediated protein turnover. Some other terms (vitamin D response, cadmium stress) appear ancillary rather than defining core function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0000083","count":7},{"id":"GO:0000209","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0098907","count":6}]},{"hash":"1192519701521406273","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms cluster around developmental differentiation and tissue/organ formation (placenta/trophoblast development, EMT in heart structures, left-right patterning, cartilage morphogenesis, pancreatic/endocrine development, and gland formation), with a secondary spliceosome-related term. This suggests a shared theme of embryonic development and organogenesis, despite some term variability.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060536","count":3}]},{"hash":"293588756815286737","title":"Photoreceptor GPCR signaling and outer segment localization","description":"The top GO terms point to retina/photoreceptor biology (retina development, photoreceptor cell maintenance, localization to the photoreceptor outer segment) and regulation of GPCR signaling, plus small GTPase pathways. This suggests a cohesive cluster of proteins involved in photoreceptor signaling and trafficking within the retina.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008277","count":4},{"id":"GO:0043547","count":3},{"id":"GO:1903546","count":3},{"id":"GO:0045494","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1635106770027696561","title":"Broad Developmental Gene Expression","description":"The cluster includes GO terms spanning development across multiple organs (gonads, brain/forebrain, retina, skeletal) and core gene expression processes (DNA-templated transcription, mRNA splicing). This combination suggests a general developmental program focused on gene expression rather than a single tissue, so the label reflects broad developmental regulation of gene expression.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0007338","count":4}]},{"hash":"371736061759784321","title":"Unknown","description":"The terms include transcription regulation, immune defense, multiple organ developmental processes (midbrain, pancreas, digestive system), and metabolic/ECM activities, with no unifying pathway and no edges linking proteins. This suggests a mixed set without a single coherent function.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0050830","count":9},{"id":"GO:0044130","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0035264","count":7}]},{"hash":"1977984824731909382","title":"Neural development and axonogenesis signaling","description":"The top GO terms cluster around neural development: neurogenesis, forebrain cell migration, and positive regulation of axonogenesis. Signaling pathways such as PI3K/AKT and MAPK signaling are commonly involved in neural differentiation and survival, consistent with a developmental neural program. Some terms (e.g., NK cell differentiation) appear as outliers, but the dominant theme ties to neural development and axon guidance.","confidence":"High","size":21,"edges":205,"triangles":1241,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001779","count":11},{"id":"GO:0043491","count":11},{"id":"GO:0021885","count":10},{"id":"GO:0043408","count":10},{"id":"GO:1902955","count":10}]},{"hash":"423388011540466335","title":"Neural Development and Axon Guidance","description":"The cluster is enriched for nervous system and brain development terms, paranode axon localization, and Roundabout signaling, pointing to neuronal differentiation and connectivity. While a few terms (e.g., T cell receptor signaling, myoblast fusion) are from other contexts, the dominant theme centers on neural development and axon guidance.","confidence":"Medium","size":21,"edges":196,"triangles":1089,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050852","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0002175","count":5}]},{"hash":"1053209607651123630","title":"ER-Golgi trafficking and proteostasis","description":"The cluster predominantly features GO terms tied to vesicle transport and protein handling inside the cell\u2014especially ER-to-Golgi trafficking, ER-associated degradation (ERAD), SNARE complex disassembly, proteasomal catabolic regulation, autophagy-related processes, and peroxisomal import\u2014suggesting a cohesive theme of intracellular protein trafficking and quality control mechanisms.","confidence":"Medium","size":21,"edges":15,"triangles":0,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":12},{"id":"GO:0006888","count":11},{"id":"GO:0030433","count":10},{"id":"GO:0006406","count":10},{"id":"GO:0019079","count":9}]},{"hash":"1989936437680813515","title":"Immune Activation and Transcriptional Regulation","description":"This cluster centers on immune signaling and transcriptional control. Frequent terms include T cell receptor signaling, chemotaxis, LPS response, and GM-CSF stimulus, plus DNA-templated transcription and its regulation. A dendrite morphogenesis term may reflect dendritic cell morphology. Overall, the proteins likely participate in immune activation and gene regulation.","confidence":"High","size":21,"edges":33,"triangles":20,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0071560","count":9},{"id":"GO:0097011","count":9},{"id":"GO:0006813","count":9},{"id":"GO:0006935","count":9}]},{"hash":"561773147744161805","title":"Developmental gene regulation and chromatin silencing","description":"This cluster centers on transcriptional regulation and chromatin-level control, including negative regulation of RNA polymerase II-driven transcription and heterochromatin formation (rDNA and silent mating-type cassette). It also features development-related processes (brain development, male gonad development, spermatogenesis), suggesting a cohesive theme of gene regulation during development. A few terms (defense response to Gram-positive bacterium, plasmid partitioning) are outliers, but do not dominate the signal.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0051290","count":9},{"id":"GO:0007338","count":8},{"id":"GO:0008584","count":8},{"id":"GO:0007420","count":8}]},{"hash":"1507844743765017178","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"The top GO terms center on actin cytoskeleton organization and assembly (lamellipodium, filopodium, and ruffle formation) driven by Rho signaling, with components of actin polymerization and overall cytoskeleton dynamics. These collectively point to actin-driven cell shape changes and motility, aligning with the core terms despite some tissue-specific functions like heart development and myelin maintenance. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0030032","count":5},{"id":"GO:0032287","count":5},{"id":"GO:0046847","count":5}]},{"hash":"670569067193117002","title":"Sensory and Cardiovascular GPCR Signaling","description":"Top GO terms indicate involvement in multiple sensory modalities (pain, vision) and temperature-related responses, plus thermogenesis, membrane potential regulation, and GPCR signaling with cGMP and adenylate cyclase activity. This points to GPCR-mediated signaling that modulates excitability and vascular function, tying sensory processing to cardiovascular regulation such as blood pressure and heart development. Overall, the cluster appears to represent a cohesive theme of GPCR-driven signaling in sensory and cardiovascular contexts.","confidence":"Medium","size":21,"edges":25,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0071502","count":17},{"id":"GO:0002024","count":17},{"id":"GO:0007601","count":15},{"id":"GO:0042391","count":15}]},{"hash":"860310252862150046","title":"RNA splicing and translational regulation","description":"The top GO terms cluster around mRNA processing and translation control: spliceosome-mediated alternative splicing and splice-site recognition; formation of the translation preinitiation complex and translation reinitiation; IRES-dependent translation; miRNA-mediated silencing by inhibition of translation; and stress-related mRNA stability. Together, these indicate a post-transcriptional regulation theme spanning from RNA processing to translational control. A single developmental term (blastocyst formation) is less central to the main function of this group.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001825","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0006376","count":8},{"id":"GO:0075522","count":8}]},{"hash":"1733759030746517261","title":"Neural development and axon guidance","description":"This cluster shows a strong enrichment for nervous system development, forebrain migration, retinal ganglion cell axon guidance, and synapse organization, indicating roles in neural patterning and connectivity. The presence of signaling pathway terms (BMP signaling regulation, MAPK cascade regulation, PI3K-Akt signaling) suggests coordinated signaling during neural development and synaptogenesis, even though a few terms relate to broader developmental processes such as angiogenesis. High confidence that the label reflects the core function of the cluster.","confidence":"High","size":21,"edges":176,"triangles":816,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001525","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0030513","count":5},{"id":"GO:0031290","count":5},{"id":"GO:0043491","count":5}]},{"hash":"963998474652952961","title":"Lipid and Hormone Biosynthesis and Metabolism","description":"The top GO terms collectively point to lipid- and hormone-related biosynthetic and metabolic processes (calcitriol and aldosterone biosynthesis, brassinosteroid homeostasis, oxylipin biosynthesis, fatty acid omega-oxidation, and lipid hydroxylation). They are complemented by xenobiotic and coumarin catabolism and isoquinoline alkaloid metabolism, suggesting enzymes involved in processing lipids, steroids, and various secondary metabolites, as well as detoxification. The presence of a single outlier term like uterus development does not override the overall cohesive theme. ","confidence":"High","size":21,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0036378","count":17},{"id":"GO:0060065","count":17},{"id":"GO:0032342","count":17},{"id":"GO:0031408","count":17},{"id":"GO:0033076","count":17}]},{"hash":"1113893478988114321","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045071","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000472","count":3}]},{"hash":"839494268230030529","title":"Mitochondrial Metabolite Transport","description":"The cluster\u2019s top GO terms are dominated by transport processes across membranes, especially mitochondrial membranes (phosphate ion, coenzyme A, citrate, thiosulfate, heme). Additional terms like the malate-aspartate shuttle and cellular responses to insulin point to mitochondrial-centered metabolism and energy regulation, making mitochondrial metabolite transport the most coherent theme for this group.","confidence":"High","size":21,"edges":85,"triangles":169,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":20},{"id":"GO:0035349","count":20},{"id":"GO:0000002","count":20},{"id":"GO:0043490","count":20},{"id":"GO:0060546","count":20}]},{"hash":"1716239525945575133","title":"Vertebrate organogenesis","description":"Top GO terms point to diverse developmental processes in vertebrates: palate (roof of mouth) development, endoderm formation, midbrain development, somite axis patterning, and biomineral tissue development, with transcriptional regulation by RNA polymerase II as a shared mechanism. The cluster appears to collect proteins involved in embryonic organogenesis and tissue formation rather than a single pathway, justifying this label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0060021","count":6},{"id":"GO:0055123","count":5},{"id":"GO:0030194","count":5},{"id":"GO:0044130","count":5}]},{"hash":"569195482769221960","title":"Mitochondrial Respiration and Stress Signaling","description":"Top GO terms indicate mitochondrial electron transport and TCA cycle, pointing to energy metabolism in mitochondria, complemented by apoptosis and innate immune signaling, suggesting a cluster centered on mitochondrial energy production with stress-related signaling pathways.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006120","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0042208","count":2},{"id":"GO:0006099","count":2}]},{"hash":"532855607560711723","title":"Cell signaling and stress response cluster","description":"Top terms indicate a broad grouping around signaling pathways (GPCR signaling, ubiquitination, morphine response) and stress responses (innate immunity, cellular responses to cadmium and hydrogen peroxide), with some hints of cell cycle regulation. The mixture suggests a cohesive theme of signaling regulation under stress rather than a single precise function, though the presence of plant cytokinin signaling adds some complexity. Confidence: Medium","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0071276","count":7},{"id":"GO:0070301","count":6},{"id":"GO:0051301","count":6}]},{"hash":"705724241734314723","title":"Visual GPCR-cGMP signaling and dopaminergic synapses","description":"This cluster centers on visual and neural signaling, with strong enrichment for visual perception, opsin-mediated signaling, and dopaminergic synaptic transmission, all tied to GPCR signaling coupled to the cGMP second messenger. It also includes regulation of membrane potential and ERK signaling, which are characteristic of light-activated retinal pathways and neuronal GPCR networks. A couple of terms (thermogenesis, heart development) appear peripheral, but do not override the dominant retina/vision/dopamine theme.","confidence":"High","size":21,"edges":95,"triangles":98,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0019233","count":19},{"id":"GO:0007199","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0042391","count":18}]},{"hash":"127413574710547898","title":"Neuronal synapse development and sensory maturation","description":"The top GO terms point to neural-related processes: positive regulation of synapse assembly, clustering of voltage-gated sodium channels, inner ear development, and dense core granule maturation, which together suggest roles in neuronal signaling and sensory system development. Some other terms (cell division, glycogen biosynthesis, autophagy-related CVT pathway) are broader or less connected, but they do not override the dominant neural/sensory theme. Overall, the cluster appears to represent neuronal signaling and sensory organ development.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0032258","count":3},{"id":"GO:0051301","count":2},{"id":"GO:1990502","count":2},{"id":"GO:0007205","count":2}]},{"hash":"428463268780946871","title":"Endomembrane vesicle trafficking","description":"The top GO terms map to transport across the endomembrane system: endosome-to-lysosome and endosome-to-melanosome transport, Golgi-to-ER retrograde transport, and Golgi-to-plasma membrane transport, plus intracellular protein transport and vesicle exocytosis regulation. Phospholipid homeostasis supports membrane trafficking by providing the lipid basis for vesicle formation. Together these terms indicate a cluster centered on intracellular vesicle trafficking and membrane dynamics, with some signals of specialized roles in spermatid development or neuronal contexts.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035646","count":4},{"id":"GO:0008333","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0055091","count":3}]},{"hash":"2013667267270369295","title":"Actin Cytoskeleton Remodeling and Trafficking","description":"The cluster shows strong enrichment for actin-related remodeling: stress fiber and filopodium assembly, regulation of filopodium assembly, and positive regulation of substrate adhesion-dependent cell spreading, all tied to cellular responses to mechanical cues. In addition, intracellular protein transport and Golgi organization hint at coordinated trafficking with cytoskeletal dynamics, indicating a shared theme of coordinating shape change with vesicle transport, with some neuronal context reflected by the GABAergic synaptic term.","confidence":"High","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0007030","count":4},{"id":"GO:0051496","count":4}]},{"hash":"1831065275493747428","title":"Mitochondrial respiration and redox balance","description":"The dominant terms point to mitochondrial energy production: aerobic respiration, mitochondrial electron transport (NADH to ubiquinone), and proton transmembrane transport. Glutathione metabolism supports redox balance, reinforcing a mitochondria-focused energy/redox cluster. Some notes mention obsolete terms, but the core signal is mitochondrial respiration and redox/homeostasis. ","confidence":"High","size":21,"edges":56,"triangles":20,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":3},{"id":"GO:0055114","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0006120","count":2}]},{"hash":"521497051438372963","title":"Innate Immunity and Neural Development","description":"The top GO terms show a strong emphasis on innate immune response, with several terms pointing to neural development and function (myelination, axonal fasciculation, sensory perception of sound) as well as cell adhesion and proteolysis. This suggests a cluster of proteins involved in immune signaling that also participate in neuron-glia interactions and neural maturation, supporting a cohesive theme around immunity with neural-development links. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0042552","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0043931","count":7}]},{"hash":"301095724097265023","title":"Immune and Cardiac Regulation Proteins","description":"This cluster shows a mix of GO terms focused on immune defense (innate response, complement activation, defense against bacterium, T cell costimulation) and cardiac electrophysiology (regulation of heart rate by cardiac conduction; regulation of atrial/ventricular membrane depolarization/repolarization). The presence of adhesion and epithelial maintenance terms suggests tissue-level interactions, hinting at proteins that may coordinate immune signaling with cardiac function in inflammatory or infection contexts. Therefore, a label like Immune and Cardiac Regulation Proteins captures the shared theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030277","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0086091","count":7},{"id":"GO:0060371","count":7},{"id":"GO:0042742","count":7}]},{"hash":"648911109400496417","title":"Vision-Related GPCR Signaling and cAMP Pathways","description":"The top GO terms point strongly to opsin/vision-related GPCR signaling and cAMP pathways (activation of adenylate cyclase, regulation of cAMP, GTPase activity, protein phosphorylation) as well as visual perception and learning. There are also broader signals related to cell proliferation and heart development, suggesting a cluster centered on GPCR-mediated signal transduction with a focus on visual/retinal pathways and related growth cues. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":8},{"id":"GO:0022400","count":8},{"id":"GO:0008284","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0043950","count":8}]},{"hash":"1283777683468097794","title":"GPCR-cAMP Signaling and Cytoskeletal Regulation","description":"The top GO terms cluster around GPCR-triggered adenylate cyclase activation and regulation of Rho signaling, pointing to a core theme of GPCR-mediated signaling with downstream effects on cytoskeletal dynamics and vascular responses. Additional terms touch on broad signaling and regulatory processes such as cell proliferation, immune-related IL-8 production, xenobiotic response, and energy metabolism (electron transport). Taken together, the cluster seems to reflect proteins involved in GPCR-initiated signaling with wide regulatory roles, including cytoskeletal changes and vascular/immune responses, rather than a single tight functional module.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0035025","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0008284","count":11}]},{"hash":"1480135256256799166","title":"Actin Cytoskeleton Regulation and Angiogenesis","description":"Top terms point to actin cytoskeleton remodeling (Rho/Rac signaling, stress fiber regulation) and vascular morphogenesis (endothelial tube lumen extension), with ancillary roles in muscle/osteoclast differentiation and transcription. This supports a theme of cytoskeletal dynamics governing angiogenesis.","confidence":"Medium","size":21,"edges":16,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000271","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0045671","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1706373953078312767","title":"Golgi retention and exosome trafficking","description":"The top GO terms converge on Golgi retention, intracellular protein transport, and regulation/assembly of extracellular exosomes, with involvement of Rap GTPase signaling. This points to a cohesive module coordinating Golgi-based trafficking and exosome biogenesis/secretion, rather than separate functions. Hence, the label Golgi retention and exosome trafficking aptly represents the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":3},{"id":"GO:1903543","count":3},{"id":"GO:0090630","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0006886","count":2}]},{"hash":"1627154950517242148","title":"Ubiquitin-Dependent Proteolysis and Immune Signaling","description":"This cluster centers on ubiquitin-mediated protein degradation and modification, with multiple GO terms for ubiquitin-dependent catabolism, autoubiquitination, and specific ubiquitin linkages (K6, K63). It also includes signaling-related terms such as NF-kappaB activation, JNK cascade regulation, and V(D)J recombination, plus a note on antiviral cargo transport, collectively indicating a coherent theme of ubiquitin-driven proteolysis and immune signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":11},{"id":"GO:1901253","count":10},{"id":"GO:0085020","count":10},{"id":"GO:0007250","count":10}]},{"hash":"1612287977931073858","title":"Unknown","description":"The top GO terms cover a wide range of seemingly unrelated processes (regulation of Rho signaling, bone mineralization, neural development, GPCR signaling, microvillus assembly, redox regulation, heterochromatin formation, glial apoptotic regulation, hydrogen peroxide metabolism, mitophagy), indicating no single cohesive function or pathway tying all 21 proteins together. Because there isn\u2019t a clear common theme, a concise functional label isn\u2019t feasible.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0030500","count":5},{"id":"GO:0021744","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0030033","count":4}]},{"hash":"1223474984931344084","title":"Neuronal signaling and synaptic regulation","description":"The enrichment of GO terms for Rho GTPase signaling, activation of GTPase activity, and excitatory postsynaptic potential regulation points to a core theme of neuronal signaling and synapse modulation. Behavioral terms like social behavior and vocalization further support a neural communication role. While other terms touch on trafficking or non-neuronal processes (immune response, barrier establishment), the strongest shared signal across the cluster is neural signaling and synaptic regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090630","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0090557","count":4},{"id":"GO:0035176","count":3}]},{"hash":"1994472292864351606","title":"Angiogenesis and Tissue Development with Complement","description":"The cluster's terms center on blood vessel formation and multicellular development, with skin and bone-related development, as well as cell adhesion. The presence of complement activation terms suggests an immune component linked to tissue remodeling, pointing to a cohesive module of vascularized tissue development with adhesion and immune involvement.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0007157","count":4}]},{"hash":"719926463045744434","title":"Unknown","description":"The 21 proteins show GO terms spanning immune defense, development (neural tube closure), transcription, protein degradation, GPCR signaling, cell division, cell fusion, protein oligomerization, DNA repair, and microtubule dynamics. There is no clear, single biological process or pathway tying these together, so I cannot assign a specific functional theme to this cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0001843","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0007200","count":6}]},{"hash":"612300212244167030","title":"Telomere maintenance and telomeric localization","description":"This cluster is dominated by GO terms about telomere biology: positive regulation of telomere maintenance via telomerase, positive regulation of telomere capping, and protein localization to the telomeric region, along with related terms on telomere maintenance and chromosomal localization. There are supporting mentions of PARP-mediated modification and chromosomal cohesion related to telomeres, suggesting a genome stability/dna repair angle. A couple of terms (pain perception, skin morphogenesis) seem unrelated and likely annotations noise. Overall, the telomere-focused theme is strong enough to warrant this label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:1904908","count":3},{"id":"GO:0070198","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0032212","count":3}]},{"hash":"655019938883205328","title":"Cell Adhesion and Anti-apoptotic Signaling","description":"The cluster\u2019s top GO terms strongly point to cell\u2013matrix and cell\u2013cell adhesion components (cell-matrix adhesion, focal adhesion assembly, bicellular tight junction assembly), suggesting structural programs at adhesion sites. In addition, several terms describe negative regulation of apoptotic signaling, including endothelial cell apoptosis and extrinsic death receptor pathways, indicating anti-apoptotic or survival signaling possibly linked to adhesion contexts. Some terms (ascospore formation, inositol catabolic process) appear less connected, but the dominant theme is adhesion-associated maintenance of cell survival.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007160","count":2},{"id":"GO:0071230","count":2},{"id":"GO:2000352","count":2},{"id":"GO:1902042","count":2}]},{"hash":"483178178365114486","title":"Neural development and axon guidance","description":"The dominant GO terms point to neural connectivity and maturation: axonal fasciculation, branchiomotor neuron axon guidance, myelination, and synapse assembly, with associated cell adhesion. This suggests a cluster enriched for neural development and axon pathfinding processes. Occasional terms like innate immune response or symbiont entry may be unrelated annotations or noise, but the core theme remains neural connectivity and maturation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":12},{"id":"GO:0046718","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0014068","count":11},{"id":"GO:0032516","count":10}]},{"hash":"2065554682368388735","title":"Embryonic neural and cardiac development","description":"The top GO terms indicate broad embryonic development with strong emphasis on neural lineage (neural tube closure, forebrain development, neuron projection development) and heart development, alongside skeletal system and multicellular organism development. This suggests the cluster comprises proteins involved in embryonic organogenesis, particularly neural and cardiac formation, with regulation via mitotic cycling and serine/threonine kinase signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0071456","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001843","count":4}]},{"hash":"1210300124173926888","title":"Interferon-responsive immune signaling and vesicle trafficking","description":"The top GO terms point to innate immune signaling (response to interferon-alpha/beta) and host defense processes, alongside intracellular trafficking and vesicle organization (endosome-to-plasma membrane transport; synaptic vesicle clustering). While there are broader stress/metabolic signals (oxidant detoxification; glucose import in response to insulin), the most coherent theme centers on interferon-responsive immune function coupled with membrane trafficking. This suggests a cluster of proteins coordinating immune signaling with vesicular transport.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0046597","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0055119","count":2},{"id":"GO:0097091","count":2}]},{"hash":"1906275625998123720","title":"Neuronal synaptic vesicle trafficking and signaling","description":"The top GO terms cluster around neuronal processes: intracellular protein transport, synaptic vesicle budding and exocytosis, regulation of synaptic vesicle exocytosis, axonogenesis, and voltage-gated calcium channel regulation, all of which point to synaptic vesicle dynamics and neuronal signaling. While there are angiogenesis-related terms (VEGF signaling, negative regulation of angiogenesis), the strongest, most specific signal relates to synaptic vesicle handling and calcium-dependent signaling in neurons, supporting this label. Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0016185","count":2}]},{"hash":"707568964945264208","title":"Neural and immune development signaling","description":"This cluster is enriched for neural development cues (retinal ganglion axon guidance; FGFR signaling involved in cortex development) and immune-related processes (innate immune response; leukocyte chemotaxis; mast cell and NK cell differentiation), all tied together by PI3K/AKT signaling components (PI3K/PKB activation). The shared presence of growth factor\u2013driven signaling and immune cell activation suggests a broader role for PI3K/AKT\u2013mediated pathways in coordinating development-related signaling across neural and immune contexts. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031290","count":14},{"id":"GO:0043491","count":14},{"id":"GO:0045087","count":14},{"id":"GO:0032148","count":14},{"id":"GO:0043304","count":14}]},{"hash":"1917066010873615597","title":"Embryonic Morphogenesis and Mesoderm Development","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including mesoderm formation, cartilage morphogenesis, left-right patterning, palatal (roof of mouth) development, and EMT in heart structures. While a couple terms touch on transcription and ribosome export, the dominant signal is developmental patterning and organogenesis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0060021","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0032298","count":3},{"id":"GO:0060972","count":3}]},{"hash":"735681898767974195","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000472","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0045842","count":2}]},{"hash":"535405223732800808","title":"NOD2\u2013NF-\u03baB Innate Immune Signaling","description":"It centers on NOD2 signaling and NF-\u03baB regulation, with intracellular signal transduction as a core theme; secondary terms include cell migration and adipocyte-related processes, suggesting the primary function is innate immune signaling via NOD2/NF-\u03baB.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":6},{"id":"GO:0032088","count":6},{"id":"GO:0050966","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0045444","count":5}]},{"hash":"2150077248625300331","title":"Embryonic developmental transcription regulators","description":"The top GO terms cluster around DNA-templated transcription and negative regulation of transcription by RNA polymerase II, plus several embryonic development processes (palate roof formation, left-right patterning, cartilage morphogenesis, pancreatic cell development), indicating these proteins act as transcriptional regulators guiding embryogenesis and organogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0000122","count":12},{"id":"GO:0060021","count":11},{"id":"GO:0046022","count":11},{"id":"GO:0060972","count":11}]},{"hash":"1048475481394715598","title":"Mitotic cell cycle and ER-Golgi trafficking","description":"The cluster is dominated by cell cycle and mitosis terms (cell cycle, cell division, mitotic cell cycle, mitotic spindle assembly, multicellular organism growth) while also featuring strong vesicle trafficking terms (COPII-coated vesicle budding, retrograde Golgi-to-ER and ER-to-Golgi transport). This points to a cohesive theme of proliferation coupled with secretory pathway dynamics, potentially in developing tissues such as brain. ","confidence":"Medium","size":20,"edges":102,"triangles":248,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":17},{"id":"GO:0051301","count":17},{"id":"GO:0008283","count":16},{"id":"GO:0090114","count":16},{"id":"GO:0007420","count":16}]},{"hash":"626774269586364459","title":"Organogenesis and ECM remodeling","description":"This cluster is shaped by developmental and tissue-remodeling themes: pancreas morphogenesis, digestive system development, lens fiber cell differentiation, and positive angiogenesis suggest organogenesis, while collagen catabolic process and ECM remodeling point to extracellular matrix restructuring. Blood coagulation and complement activation can relate to vascular and immune aspects of organ development, with transcription regulation terms providing a broad regulatory backdrop. Overall, the proteins appear linked to formation and remodeling of tissues and organs rather than a single narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006958","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0030574","count":5},{"id":"GO:0007596","count":5}]},{"hash":"638481895193672444","title":"Ubiquitin-Dependent Regulation and Development","description":"Rationale: The most frequent terms center on ubiquitin-dependent protein catabolic process and autoubiquitination, plus transcriptional regulation, with several tissue differentiation terms pointing to broad developmental roles. This suggests a general function in ubiquitin-mediated regulation of gene expression and cell differentiation rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0016049","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0003323","count":4}]},{"hash":"1448908144144260757","title":"Wnt-driven development and ECM remodeling","description":"The top GO terms point to developmental signaling (Wnt pathway, midbrain development, biomineral tissue development) combined with extracellular matrix remodeling processes (elastin catabolic process, fibrinolysis, coagulation). This suggests a cluster of proteins involved in developmentally guided tissue remodeling and ECM turnover rather than a single metabolic function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030194","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0031214","count":6},{"id":"GO:0016055","count":6}]},{"hash":"237021654853464833","title":"Embryonic Patterning and Morphogenesis","description":"The proteins are enriched for GO terms tied to embryonic development and tissue formation, including left-right patterning, endocardial cushion formation, cartilage morphogenesis, palate (roof of mouth) development, placental/endocrine development, and pancreatic cell development. This suggests a cohesive theme of developmental patterning and organogenesis. A spliceosome-related term likely reflects general gene expression regulation rather than a separate functional module. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060021","count":5}]},{"hash":"1996004424473495328","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The top GO terms center on mRNA splicing and spliceosome-mediated regulation, including positive regulation of splicing, regulation of alternative splicing, and splice site recognition, with supporting signals from RNA silencing and stress-related mRNA stability. This points to a cohesive function in RNA processing and splicing control, rather than other unrelated processes.","confidence":"High","size":20,"edges":139,"triangles":507,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":17},{"id":"GO:0031047","count":17},{"id":"GO:0000381","count":15},{"id":"GO:0000380","count":15},{"id":"GO:0010610","count":15}]},{"hash":"1923624518141602126","title":"Mitotic cell division","description":"Label reflects strong enrichment for mitosis and cell division processes (mitotic spindle midzone assembly, mitotic cytokinesis, spindle pole body duplication, cell cycle, cell division). Neuron-related and interleukin-4 response terms appear less dominant. Therefore, 'Mitotic cell division' best captures the core function.","confidence":"High","size":20,"edges":20,"triangles":15,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":5},{"id":"GO:0001764","count":5},{"id":"GO:2000767","count":4},{"id":"GO:0051256","count":4},{"id":"GO:0007049","count":4}]},{"hash":"1807887858195749710","title":"mRNA Splicing and Translation Regulation","description":"The top GO terms cluster around mRNA processing and translation control, including spliceosome-mediated splicing, splice site recognition, polyadenylation, regulation of splicing, translation initiation/reinitiation, and IRES-dependent initiation, as well as stress-related mRNA stability. This pattern suggests a cohesive role in post-transcriptional gene expression\u2014processing of mRNA and regulation of its translation\u2014across the proteins in this cluster.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":12},{"id":"GO:0002188","count":11},{"id":"GO:0001731","count":11},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":10}]},{"hash":"1517220506522720970","title":"Neural development and synapse assembly","description":"Many of the top GO terms point to nervous system development (GO:0007399), positive regulation of synapse assembly (GO:0051965), and cell-cell adhesion (GO:0007156, GO:0007157). The combination of synapse-related assembly, neuronal stem cell maintenance, and corticospinal tract morphogenesis suggests a cluster of proteins involved in establishing neural connectivity and tissue patterning via adhesion-mediated processes. Occasional terms related to bone maturation and hair follicle orientation may reflect gene pleiotropy rather than core cluster function.","confidence":"High","size":20,"edges":40,"triangles":7,"max_degree":15,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051965","count":18},{"id":"GO:0007156","count":18},{"id":"GO:0043931","count":18},{"id":"GO:0007399","count":18},{"id":"GO:0007157","count":18}]},{"hash":"1056858799136216224","title":"Immune activation and actin-driven cell migration","description":"These proteins cluster around adaptive immune signaling (T cell activation, B cell maturation) and cytoskeletal remodeling essential for migration (lamellipodium assembly, actin organization). Hyaluronan metabolism and ECM cues support immune cell movement, with IGF signaling and vascular remodeling terms providing broader signaling context that can influence immune behavior. Overall, the theme is immune activation linked to actin-driven migration.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030212","count":10},{"id":"GO:0002291","count":10},{"id":"GO:0048009","count":10},{"id":"GO:0016477","count":10},{"id":"GO:2001275","count":10}]},{"hash":"964943899541357464","title":"Vertebrate organ development","description":"Proteins in this cluster are enriched for GO terms across multiple vertebrate organ development processes (uterus, midbrain, inner ear, hindlimb morphogenesis, roof of mouth/palate development, trigeminal ganglion, pituitary gland, outflow tract morphogenesis), plus a term for negative regulation of transcription by RNA polymerase II, suggesting a general role in developmental programs and transcriptional control rather than a single tissue pathway.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060065","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0048839","count":5},{"id":"GO:0035116","count":5}]},{"hash":"2096663318813361994","title":"Unknown","description":"The top terms span unrelated processes (ubiquitin-dependent ERAD, mRNA splicing, DNA replication initiation regulation, chromatin modifications, actin capping, ribosomal export, protein targeting/oligomerization) and include obsolete annotations, giving no single cohesive function for the cluster. This suggests a heterogeneous or noisy set of functions rather than a well-defined theme.","confidence":"","size":20,"edges":16,"triangles":1,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0032781","count":4},{"id":"GO:0043966","count":3},{"id":"GO:0006349","count":3}]},{"hash":"13784734576730361","title":"Phosphorylation-Mediated Stress Response","description":"This cluster is driven by phosphorylation-related activities (protein autophosphorylation, peptidyl-histidine phosphorylation) and cellular responses to oxidative and nutrient signals (hydrogen peroxide and glucose). Translation being a listed term may reflect co-purified components, but the core theme points to signaling and stress/metabolic regulation via phosphorylation. Some terms about phagocytosis and leukocyte differentiation seem less directly connected. ","confidence":"Medium","size":20,"edges":142,"triangles":589,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0051259","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0030819","count":3},{"id":"GO:0046777","count":3}]},{"hash":"618427500098319996","title":"Neural signaling and stress-response pathways","description":"Enriched GO terms point to signaling cascades activated by external stimuli ( xenobiotic, epinephrine) and regulated by kinases (NF-kB, cAMP signaling). The presence of myelination and memory hints emphasizes neural context, so the cluster can be viewed as neural signaling and stress-response pathways. Some cell-cycle terms may reflect shared regulators rather than core functions.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0032465","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0022011","count":3}]},{"hash":"400253846095484353","title":"Immune activation and phagocytosis","description":"These proteins co-represent innate and adaptive immune processes: multiple terms point to innate responses (complement activation, phagocytosis) and adaptive signaling (B cell receptor signaling, T cell costimulation, positive regulation of B cell activation). Lipoteichoic acid detection supports pathogen recognition, reinforcing an immune-activation theme. A lone term about sodium channel clustering is less central. Overall, the cluster centers on immune system activation and function.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":15},{"id":"GO:0045087","count":12},{"id":"GO:0006910","count":12},{"id":"GO:0050853","count":12},{"id":"GO:0006911","count":12}]},{"hash":"1743177383069947012","title":"RNA Processing and Ribosome Biogenesis","description":"The strongest signals are ribosome biogenesis and mRNA processing, with related translation initiation terms, which together point to RNA metabolism and protein synthesis machinery as the core of this cluster. There are also transcription and DNA maintenance terms, but they appear secondary to the RNA processing/translation theme.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006366","count":2}]},{"hash":"504943228999658735","title":"Rho-Driven Cytoskeleton Dynamics and Migration","description":"The dominant GO terms focus on regulation of Rho/Ras signaling, lamellipodium and filopodium assembly, and cell migration, indicating actin cytoskeleton remodeling as the core function of this cluster; other terms like insulin signaling and development are present but less central to the shared theme.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":17},{"id":"GO:0008286","count":17},{"id":"GO:0016477","count":16},{"id":"GO:0030032","count":16},{"id":"GO:0032287","count":16}]},{"hash":"862055277573926499","title":"Muscle and nervous system development","description":"The cluster includes cardiac and skeletal muscle development, cardiac contraction, and Schwann cell development with peripheral myelination, suggesting a shared theme of excitable-tissue development. Calcium signaling and regulation of protein kinase activity further tie into signaling processes central to muscle function and neural differentiation; memory and cell cycle terms are ancillary but compatible with neural development. Overall, it represents muscle and peripheral nervous system development with associated signaling.","confidence":"Medium","size":20,"edges":56,"triangles":62,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":13},{"id":"GO:0005513","count":13},{"id":"GO:0060048","count":13},{"id":"GO:0048741","count":13},{"id":"GO:0000278","count":13}]},{"hash":"2253110668493521328","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster around ribosome function and protein synthesis (cytoplasmic translation, translation, ribosomal subunit biogenesis, nuclear export of ribosomal subunits). Cell cycle and cell division terms suggest growth-linked coordination with translation, and the antibiotic response term aligns with ribosome-targeting stress. Overall, the group appears to represent ribosome assembly and translation machinery with related cell-cycle context.","confidence":"High","size":20,"edges":23,"triangles":8,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0002181","count":7},{"id":"GO:0046677","count":7},{"id":"GO:0007049","count":7},{"id":"GO:0042274","count":6}]},{"hash":"1082354411933506237","title":"Thermosensory GPCR-cAMP signaling and autonomic regulation","description":"This cluster is dominated by GO terms for temperature stimulus response, thermogenesis, and sensory perception (pain, touch) along with GPCR signaling pathways that activate adenylate cyclase and influence membrane potential and blood pressure, suggesting a theme of thermosensory and broader sensory GPCR signaling linked to autonomic cardiovascular regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0042391","count":8},{"id":"GO:0050976","count":7}]},{"hash":"2190616426975445587","title":"Cell cycle control by ubiquitin-mediated proteolysis","description":"The cluster\u2019s top GO terms center on mitotic processes, cell division, and degradation pathways controlled by ubiquitin ligases (APC and SCF) including K11-linked ubiquitination, indicating a coherent theme of regulating mitosis through targeted proteolysis. Additional terms for ribosome biogenesis and DNA-templated transcription suggest accompanying growth and transcriptional activity in proliferating cells, but the dominant signal is ubiquitin-dependent regulation of the cell cycle.","confidence":"High","size":20,"edges":69,"triangles":90,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0000747","count":9},{"id":"GO:0031175","count":9},{"id":"GO:0042254","count":9},{"id":"GO:0051301","count":9}]},{"hash":"315153889917040355","title":"Rho-regulated Development and Immune Signaling","description":"The cluster groups proteins involved in developmental morphogenesis across tissues (heart, otolith, branching morphogenesis, myelination, synapse assembly) and innate immune functions (innate defense, defense against Gram-positive bacteria, chemokine production). The common thread is regulation of Rho protein signaling, which controls cytoskeletal dynamics and cell migration critical for both tissue morphogenesis and immune signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":13},{"id":"GO:0016525","count":10},{"id":"GO:0090197","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0032474","count":8}]},{"hash":"641922025186954321","title":"GPCR-driven cAMP/cGMP signaling and environmental sensing","description":"The top terms point to G protein-coupled receptor signaling (adenylate cyclase activation, adenosine receptor signaling, forskolin response, receptor guanylyl cyclase) and second messenger biology (cGMP/cAMP biosynthesis), plus environmental cues (blue light signaling, hypoxia detection). This suggests a cohesive theme of GPCR-mediated signaling with cAMP/cGMP second messengers and related environmental sensing pathways.","confidence":"Medium","size":20,"edges":12,"triangles":0,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071880","count":11},{"id":"GO:1900194","count":11},{"id":"GO:0070483","count":11},{"id":"GO:0006355","count":11},{"id":"GO:1904322","count":11}]},{"hash":"2179266036342384350","title":"Cell cycle control and neural development","description":"This cluster prominently features terms for regulating cyclin-dependent kinase activity and cell proliferation, alongside neural development terms such as cerebellar cortex formation, Bergmann glial differentiation, and axon regeneration. The presence of insulin signaling and caveolin-mediated endocytosis suggests broader signaling and trafficking roles, but the strongest shared theme appears to be growth/proliferation control linked with neural differentiation processes. Confidence: Medium","confidence":"","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045736","count":20},{"id":"GO:0034501","count":20},{"id":"GO:0021697","count":19},{"id":"GO:0008286","count":19},{"id":"GO:0060020","count":19}]},{"hash":"1267072161479468841","title":"MAPK-linked immune and neural development","description":"The cluster is enriched for MAPK cascade regulation (ERK/JNK), immune signaling terms (mast cell degranulation, T cell receptor signaling), and neural development (hippocampus development, axonogenesis). This combination suggests a common theme around signaling modules that coordinate immune responses and neural development, anchored by MAPK pathway activity, hence the label.","confidence":"Medium","size":20,"edges":36,"triangles":9,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043304","count":19},{"id":"GO:0050852","count":19},{"id":"GO:0046330","count":19},{"id":"GO:0050771","count":19},{"id":"GO:0070374","count":19}]},{"hash":"1673613202659237651","title":"Bacterial LPS and cell wall polysaccharide biosynthesis","description":"This cluster is dominated by GO terms for lipopolysaccharide biosynthesis and O-antigen biosynthesis, along with GDP-mannose and other sugar-nucleotide pathways, and multiple carbohydrate metabolism processes (glucose-1-phosphate, glycogen, galactose). These together suggest a core role in assembling and remodeling bacterial outer envelope polysaccharides and related sugar metabolism.","confidence":"High","size":20,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":5},{"id":"GO:0009243","count":4},{"id":"GO:0006148","count":4},{"id":"GO:0019255","count":4},{"id":"GO:0046115","count":4}]},{"hash":"1839968535423807919","title":"Rho GTPase signaling and endocytosis in development","description":"The top GO terms point to regulation of Rho GTPase activity and Rho signaling, combined with multiple endocytosis-related processes (ubiquitin-dependent endocytosis, receptor-mediated endocytosis). Developmental processes such as brain development and myoblast fusion suggest a role for these signaling and trafficking pathways in developmental contexts, even though a few terms (immune defense, Cvt pathway) are less central. Overall, the cluster seems best captured by coordinated Rho signaling and membrane trafficking in development. ","confidence":"Medium","size":20,"edges":132,"triangles":384,"max_degree":18,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0032258","count":3}]},{"hash":"1420645802513630287","title":"Systemic inflammatory and coagulation response","description":"This cluster shows enrichment for acute-phase response, defense against bacteria, blood coagulation, and dexamethasone/glucocorticoid responsiveness, pointing to inflammatory and stress signaling. BMP signaling regulation and xenobiotic response imply broader regulatory cross-talk, with cardiac conduction and sensory terms suggesting cardiovascular/sensory involvement under stress. Overall, it represents inflammatory/coagulation and stress-response pathways.","confidence":"Medium","size":20,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007565","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006953","count":3}]},{"hash":"1305681910571453092","title":"Innate immune signaling and inflammation","description":"The top GO terms center on innate immune response, defense against viruses, and activation of inflammatory pathways (NF-kappaB signaling, TLR4 signaling, IL-6 regulation, and TNF/TGF-beta related signaling). This suggests a cohesive cluster of innate immune recognition and downstream inflammatory responses, with some regulatory elements. Thus a label focusing on innate immune signaling and inflammation best captures the shared function of these proteins.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0032715","count":3}]},{"hash":"1352626864938760162","title":"Mechanosensitive adipogenesis","description":"The cluster centers on fat cell differentiation and growth, with clear signals for mechanosensing (cellular response to mechanical stimulus, response to muscle stretch) and lipid metabolism (glycerophospholipid catabolic process). The vitamin D response also aligns with hormonal regulation of adipogenesis. While a few terms are less directly linked, the dominant theme is adipocyte differentiation modulated by mechanical/hormonal cues, justifying a mechanosensitive adipogenesis label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0016049","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0045444","count":6},{"id":"GO:2001275","count":6}]},{"hash":"1614250260153299490","title":"Neural and lens development with caveolin-mediated endocytosis","description":"These proteins are dominated by GO terms tied to nervous system development (central nervous system neuron development, cerebellum development) and eye lens development, plus a strong signal for caveolin-mediated endocytosis and related signaling. This suggests a cohesive theme around CNS and ocular development with membrane trafficking contributing to signaling and patterning during development. Other terms like DNA repair and GPCR desensitization appear ancillary rather than defining the cluster.","confidence":"Medium","size":20,"edges":67,"triangles":108,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":20},{"id":"GO:0002088","count":20},{"id":"GO:0021954","count":20},{"id":"GO:0033160","count":20},{"id":"GO:0016477","count":20}]},{"hash":"2026203650596677074","title":"DNA Damage Response and Cell Cycle Control","description":"The proteins cluster around DNA repair (base-excision repair, DNA recombination), apoptosis, and oxidative stress response, with additional links to cell cycle regulation (G1/S transition). This suggests a cohesive module overseeing DNA damage sensing/repair, cell fate decisions, and progression through the cell cycle, despite a few outlier terms such as corneocyte development. ","confidence":"Medium","size":20,"edges":14,"triangles":3,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0006915","count":4},{"id":"GO:2000466","count":3},{"id":"GO:0014912","count":3}]},{"hash":"271673457796873922","title":"Vesicle trafficking and autophagy","description":"The top terms cluster around intracellular membrane trafficking (ER-Golgi and endosome-Golgi transport, protein targeting to vacuole) and autophagy, with supporting signals from GTPase regulation. While some terms touch on development or pigmentation, the dominant theme is vesicle-mediated transport and degradation pathways within the cell.","confidence":"High","size":20,"edges":12,"triangles":0,"max_degree":12,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0034498","count":5},{"id":"GO:0016358","count":5},{"id":"GO:0006914","count":5},{"id":"GO:0043547","count":5}]},{"hash":"345742858599123529","title":"Neural sensory and retinal signaling","description":"The dominant terms point to neural signaling related to sensory perception (pain), neuropeptide pathways, and retinal functions (photoreceptor maintenance, visual learning). Additional terms about temperature sensing and calcium release fit within neuronal signal transduction and sensory processing, while immune-related terms are less central. This suggests a cluster enriched for neural/retinal sensory functions with some linking metabolic cues.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0090023","count":6},{"id":"GO:0032720","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0051209","count":6}]},{"hash":"1508551952083454746","title":"Neural GPCR signaling and sensory processing","description":"This cluster centers on neural signal transduction and sensory-related processes, with several GO terms pointing to GPCR pathways (serotonin receptor signaling, adenylate cyclase activation, PLC activation) and vision-related signaling (visual learning, opsin signaling). Behavioral context (operant conditioning) and astrocyte chemotaxis further support a neural/sensory processing theme. A few terms related to immune cell chemotaxis (IL-8, eosinophil) are less central but may reflect cross-talk between systems. Overall, the dominant theme is neural signaling and sensory processing.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":20},{"id":"GO:0035106","count":20},{"id":"GO:0007190","count":20},{"id":"GO:2000484","count":20},{"id":"GO:0007208","count":20}]},{"hash":"1788654435921596925","title":"Vision-Linked GPCR Signaling","description":"The top GO terms point to GPCR-mediated signaling pathways (adenylate cyclase activation, PLC activation), regulation of opsin-mediated signaling, and vision-associated processes like visual learning, suggesting proteins in this cluster primarily participate in GPCR-driven signal transduction linked to visual and neural functions. Some chemotaxis terms appear, but the core pattern is vision-related GPCR signaling with learning/plasticity implications.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":17},{"id":"GO:0035106","count":17},{"id":"GO:0007190","count":17},{"id":"GO:2000484","count":17},{"id":"GO:0007208","count":17}]},{"hash":"2266872372700068560","title":"Inflammation and Cytokine Signaling","description":"The cluster shows multiple immune-related GO terms: inflammatory response, monocyte activation, cellular responses to TNF and IL-1, and signals related to hematopoietic differentiation and T cell homeostasis, pointing to a core theme of immune activation and cytokine-driven inflammation. Some terms (e.g., motor neuron axon guidance, an obsolete oxidation-reduction term) appear as noise, but the dominant signal supports inflammatory immune processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0006954","count":4},{"id":"GO:0002244","count":4},{"id":"GO:0042117","count":4}]},{"hash":"1011941833168772866","title":"Blood Coagulation and Fibrinolysis Regulation","description":"This cluster shows a strong signal for hemostasis-related processes, including blood coagulation, negative regulation of plasminogen activation, and negative regulation of fibrinolysis, plus bradykinin catabolic activity. Some terms mention apoptosis or neural differentiation, but the dominant pattern centers on coagulation and fibrinolysis control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042771","count":4},{"id":"GO:0002002","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0009408","count":3}]},{"hash":"1135409007613875904","title":"Cardiovascular development and signaling","description":"Based on the top GO terms, the strongest signal is heart development and related cardiogenesis (heart development, cardiac muscle contraction, axial mesoderm formation) with regulatory pathways such as Wnt signaling and MAPK/JNK modulation, plus deubiquitination and transcriptional control. A few terms point to neural aspects (dendritic spine morphogenesis, social behavior), which may reflect broader developmental roles or annotation breadth, but the core theme remains mesoderm-derived cardiovascular development and its signaling control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035176","count":6},{"id":"GO:0060997","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0060048","count":5},{"id":"GO:0043507","count":4}]},{"hash":"144436568252750073","title":"Developmental signaling and neural processes","description":"The top GO terms point to neural development (neuron migration, CNS axonogenesis, myelin maintenance) and broader developmental contexts (heart and mammary gland development) along with signaling (insulin receptor pathway) and phosphorylation. This suggests a general theme of developmental signaling across tissues with a notable neural emphasis, rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0001764","count":2},{"id":"GO:0021952","count":2},{"id":"GO:0001782","count":2}]},{"hash":"1238208563033496912","title":"Sphingolipid signaling in brain and vascular development","description":"Proteins in this cluster cluster around sphingolipid metabolism and signaling (sphingosine biosynthesis, sphingoid catabolic processes, dihydrosphingosine-1-P pathway) and S1P receptor signaling, with supporting terms for brain and blood vessel development, inflammatory response, and synaptic regulation. This suggests a cohesive module linking sphingolipid signaling to neural and vascular development and immune-related processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0003376","count":4},{"id":"GO:0090181","count":4},{"id":"GO:0006954","count":4},{"id":"GO:0001568","count":4}]},{"hash":"2036429961726465670","title":"Transcriptional Regulation and Stress Signaling","description":"This cluster centers on nuclear gene expression control (DNA-templated transcription, mRNA processing) and protein turnover (ubiquitination), coupled with stress and immune signaling pathways (ER-stress\u2013induced apoptosis, NF-kappaB-related regulation). While some terms relate to differentiation and defense, the shared theme is transcriptional regulation intertwined with ubiquitin-mediated regulation and cellular stress responses.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0051567","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0045444","count":5}]},{"hash":"1138465633491612769","title":"Cardiac development and signaling","description":"The top GO terms cluster around heart development and cardiac muscle contraction, with supporting signals from calcium-modulated Wnt signaling and regulatory kinase activities (positive regulation of GTPase activity, serine/threonine kinase activity, and autophosphorylation). This suggests proteins that participate in cardiac development and calcium-dependent signaling pathways governing heart function, with some peripheral terms like insulin response and pregnancy appearing but not driving the core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0031954","count":7},{"id":"GO:0097274","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0071902","count":6}]},{"hash":"1781189917017557388","title":"Muscle and fat differentiation signaling","description":"This cluster centers on differentiation of skeletal muscle fibers and adipocytes, with GO terms for skeletal muscle fiber development and fat cell differentiation, supported by signaling regulation terms (GTPase activity, serine/threonine kinase activity, autophosphorylation) suggesting coordinated signal transduction guiding these lineage specifiers.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071902","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0048741","count":3}]},{"hash":"1739462363099929623","title":"Glycolysis and Glycogen Metabolism","description":"The cluster is dominated by GO terms for canonical glycolysis, glycogen breakdown to glucose-1-phosphate, and fructose-6-phosphate metabolism, plus carbohydrate phosphorylation, indicating primary involvement in intracellular carbohydrate catabolism. A few development-related terms appear but at much lower counts.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0093001","count":4},{"id":"GO:0005980","count":4},{"id":"GO:0061621","count":4},{"id":"GO:0046835","count":4},{"id":"GO:0006002","count":4}]},{"hash":"951515894514818085","title":"Multisystem Developmental Signaling","description":"The top GO terms span neural signaling (regulation of NMDA receptor activity; axonogenesis), immune activation (B cell receptor signaling; germinal center formation), muscle development (skeletal muscle fiber development; muscle cell fate specification), and vascular growth (angiogenesis), plus Golgi localization. There isn\u2019t a single coherent pathway connecting all proteins; instead, the cluster appears to reflect broad developmental and signaling roles across neural, muscular, immune, and vascular contexts. The label captures a cross-tissue developmental signaling theme rather than a specific process.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000310","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0002467","count":3}]},{"hash":"405954454176060450","title":"Unknown","description":"This cluster mixes terms from heart development, Rho signaling, dendritic spine and synapse-related processes, ion transport, immune responses (B cell maturation, lipopolysaccharide response), and apoptosis, with no single unifying function or pathway evident. The lack of connecting theme and the absence of edges suggest the proteins do not share a cohesive biological role, so a specific label is not justifiable. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0061000","count":4},{"id":"GO:0010765","count":4},{"id":"GO:0051092","count":4}]},{"hash":"2246317734695917178","title":"Golgi\u2013endosome vesicle trafficking and Rab signaling","description":"Annotation shows multiple terms tied to intracellular transport through Golgi, ER, and endosomes, with Rab-regulated signaling and vesicle movement. Although a couple of RNA-processing terms appear, the dominant pattern is vesicle trafficking and Golgi routing, suggesting the cluster groups proteins involved in this pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0090630","count":2},{"id":"GO:1902018","count":2},{"id":"GO:0035526","count":2}]},{"hash":"2272398225957226498","title":"Embryonic Development and Morphogenesis","description":"The cluster's top GO terms converge on embryonic development and tissue morphogenesis, including placental development, EMT in endocardial cushion formation, left-right patterning, cartilage morphogenesis, trophoblast differentiation, and endocrine system development. Regulatory signaling (e.g., Wnt) and angiogenesis further support a cohesive role in early development and organogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0003323","count":6}]},{"hash":"950239138237896657","title":"Neural and cardiac development with vesicle signaling","description":"This cluster is dominated by GO terms for nervous system/brain development and heart development, suggesting a neural-cardiac developmental theme. It also includes terms tied to vesicle fusion, calcium-dependent exocytosis, and Rho GTPase signaling, pointing to cytoskeletal and secretory processes important in neuronal and cardiomyocyte maturation. While there is a plant-associated term present, the overall pattern supports a cohesive focus on neural and cardiac development with vesicle trafficking.","confidence":"Medium","size":19,"edges":87,"triangles":241,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":14},{"id":"GO:0043547","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0006906","count":12},{"id":"GO:0007266","count":12}]},{"hash":"779231318702165141","title":"Embryonic organogenesis and tissue development","description":"The proteins are enriched for GO terms across fertilization, heart and organ development, morphogenesis, neural migration, retinal axon guidance, and overall multicellular development, indicating a cohesive theme of embryonic organogenesis and tissue formation.","confidence":"High","size":19,"edges":16,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007338","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0001759","count":17},{"id":"GO:0001764","count":17},{"id":"GO:0003350","count":17}]},{"hash":"2001562222953502735","title":"Wnt-regulated developmental transcription and morphogenesis","description":"The top GO terms cluster around transcriptional regulation and Wnt signaling, plus a mix of developmental and morphogenesis processes across various tissues (left/right pattern formation, pancreas morphogenesis, midbrain development, lens epithelial proliferation, fat differentiation, angiogenesis). This suggests the proteins function together to control developmental gene expression and tissue formation, with Wnt signaling as a central theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0016055","count":5},{"id":"GO:0006351","count":5},{"id":"GO:2001111","count":5},{"id":"GO:0043046","count":5}]},{"hash":"1022238969928390197","title":"Rac-driven actin remodeling and podosome/filopodium assembly","description":"The top GO terms cluster around actin cytoskeleton dynamics (filopodium/podosome assembly, actin polymerization) and signaling pathways involving Rac and other small GTPases, coupled with cell spreading, polarity, and T cell receptor signaling. This suggests a cohesive theme of Rac-dependent actin remodeling driving formation of protrusive/adhesive structures and cell migration. Wnt signaling and podosome-related terms further support cytoskeletal regulation as the core function.","confidence":"High","size":19,"edges":78,"triangles":139,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":8},{"id":"GO:0090263","count":8},{"id":"GO:1900026","count":8},{"id":"GO:0007264","count":8},{"id":"GO:0043552","count":8}]},{"hash":"2105795326424722716","title":"Bacterial siderophore and NRPS secondary metabolism","description":"The top GO terms are dominated by siderophore biosynthesis (GO:0019290), nonribosomal peptide biosynthetic process activation (GO:0043041), along with related pathways like menaquinone biosynthesis and bioluminescence, which are emblematic of bacterial secondary metabolism involved in iron acquisition and NRPS-derived metabolite production. Although a few terms pertain to plants (phenylpropanoid metabolism, seed germination), the strongest signals point to microbial NRPS-driven biosynthesis and siderophore production, suggesting this cluster represents bacterial secondary metabolism rather than plant pathways.","confidence":"Medium","size":19,"edges":93,"triangles":190,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009698","count":6},{"id":"GO:1902987","count":6},{"id":"GO:0008218","count":6},{"id":"GO:0090410","count":6},{"id":"GO:0019427","count":6}]},{"hash":"348427065041113849","title":"RNA splicing and post-transcriptional regulation","description":"Genes in this cluster are enriched for spliceosome-mediated regulation of mRNA processing (alternative splicing, splice site recognition), mRNA stability in response to stress, and small RNA\u2013mediated silencing (ncRNA and miRNA pathways), as well as translation initiation control (IRES). This points to a cohesive theme of post-transcriptional gene regulation at splicing and translation levels.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0000381","count":10},{"id":"GO:0006376","count":9}]},{"hash":"1010395434666128363","title":"Neural Development and Synaptic Signaling","description":"The cluster is dominated by nervous system\u2013related processes, including CNS and hippocampus development, regulation of dendritic spine morphogenesis, and regulation of synaptic vesicle exocytosis, plus axon-guidance signaling (ROBO) and SHH pathways that shape neural wiring. Occasional terms like kidney development and T cell receptor signaling appear, but the core theme centers on neural development and synaptic function.","confidence":"High","size":19,"edges":119,"triangles":327,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0035385","count":5},{"id":"GO:0061001","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0007417","count":4}]},{"hash":"1473510358670562551","title":"ERAD and Ubiquitin-Dependent Protein Quality Control","description":"The cluster is dominated by ubiquitin-related processes: ubiquitin-dependent ERAD pathway, protein autoubiquitination, and protein deubiquitination, along with unfolded protein maintenance in ERAD. This points to a cohesive theme of proteostasis and targeting misfolded/ER-resident proteins for degradation via the ubiquitin-proteasome system. Some related terms touch broader stress signaling and regulation, but the central thread remains ubiquitin-mediated quality control in the ER.","confidence":"High","size":19,"edges":168,"triangles":921,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0051865","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0034140","count":6},{"id":"GO:0016579","count":6}]},{"hash":"1383495848429741063","title":"Spliceosome and RNA Processing Machinery","description":"This cluster is dominated by GO terms for mRNA splicing and RNA processing, including spliceosome-mediated mRNA splicing, spliceosomal snRNP and complex assembly, and tRNA processing, indicating a core RNA maturation/processing function. Additional terms like termination of transcription, nuclear import, and P-body assembly reinforce the theme of RNA metabolism spanning nucleus and cytoplasm. Some unrelated terms (ABA response) exist but do not override the central RNA-processing signal.","confidence":"High","size":19,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":16},{"id":"GO:0000245","count":12},{"id":"GO:0008033","count":11},{"id":"GO:0033962","count":11},{"id":"GO:0000387","count":11}]},{"hash":"1971228987096878927","title":"Differentiation and cytoskeletal remodeling with polarity","description":"The top GO terms cluster around differentiation of diverse cell types (trophoblast giant cells, oligodendrocytes) and processes involving the cytoskeleton and cell polarity (actin filament bundles, cell migration, establishment of epithelial polarity). Ubiquitin-dependent protein turnover and CDK regulation suggest coordination with cell cycle control during differentiation. Vitamin D response appears as an ancillary signal. Overall, the theme is differentiation coupled with cytoskeletal remodeling and polarity establishment, with no single pathway dominating.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0048709","count":4}]},{"hash":"774703562366306025","title":"RNA splicing and export with DNA damage response","description":"Top terms center on mRNA splicing and export and translation initiation, pointing to post-transcriptional gene regulation; together with SOS/dsDNA repair terms, the cluster also links to genome maintenance under stress.","confidence":"Medium","size":19,"edges":23,"triangles":5,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0006406","count":7},{"id":"GO:0019079","count":6},{"id":"GO:0006260","count":6}]},{"hash":"2183444371828258820","title":"Neuronal growth and synaptic assembly","description":"The top GO terms cluster around neuronal development and synapse biology: lamellipodium and actin cortex remodeling suggests growth cone dynamics; postsynaptic density assembly and AMPA receptor activity point to synaptic maturation and function; growth factor responses (nerve growth factor, TGF-\u03b2) align with signaling guiding neuronal development. While terms like heart development appear, the dominant theme is neuron growth and synapse organization.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0000147","count":6},{"id":"GO:0097117","count":6},{"id":"GO:0030032","count":6},{"id":"GO:2000969","count":6}]},{"hash":"246117126644078443","title":"Adhesion and signaling in neurons and immune cells","description":"The cluster\u2019s top GO terms point to signaling (insulin receptor pathway, synaptic potentiation) together with cell adhesion and cytoskeletal/motility processes (lamellipodium assembly, substrate adhesion-dependent spreading), plus immune and apoptotic activities. This pattern suggests a cohesive theme around adhesion-mediated signaling and motility that operates in neural and immune contexts.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:1900026","count":4},{"id":"GO:0060291","count":4},{"id":"GO:1901407","count":3},{"id":"GO:0075522","count":3}]},{"hash":"863270633073614597","title":"Neural development and sensory signaling","description":"The top GO terms cluster around nervous system functions: retina development, locomotory behavior, and regulation of sensory perception of pain, along with positive regulation of GTPase activity, which is linked to signaling pathways. While there are outlier terms such as electron transport chain and cell wall macromolecule catabolic process, the dominant terms suggest a theme of neural development and sensory signaling. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":11},{"id":"GO:0008284","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0043547","count":7}]},{"hash":"167313462716674996","title":"Immune Activation: B Cells and Phagocytes","description":"The top GO terms point to both innate and adaptive immune processes: innate immune response and complement activation, phagocytosis (recognition and engulfment), and adaptive signaling and regulation in B and T cells (B cell receptor signaling, B cell activation, T cell activation, and affinity maturation). This pattern suggests a cohesive immune-response module centered on B cell\u2013mediated signaling and phagocytic activity.","confidence":"High","size":19,"edges":5,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0006910","count":11},{"id":"GO:0050853","count":11},{"id":"GO:0006911","count":11}]},{"hash":"2246426398731936304","title":"Axonogenesis and synaptic development","description":"The top GO terms are dominated by neural development and synaptic function, including axonogenesis, Schwann cell development, and excitatory postsynaptic potential, with visual perception also pointing to neural tissue. While terms like heart development and response to muscle activity appear, the strongest signal comes from nervous system\u2013related processes and synapse formation, suggesting the cluster centers on neural differentiation and synaptic signaling, with some broader developmental roles mixed in.","confidence":"Medium","size":19,"edges":23,"triangles":7,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":10},{"id":"GO:0014850","count":10},{"id":"GO:0014044","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9}]},{"hash":"2223606461797416934","title":"GPCR Signaling and Hormonal Regulation","description":"Top terms indicate a core GPCR signaling theme, including adenylate cyclase-activating dopamine receptor signaling, phospholipase C activation, and Rho pathway regulation, with downstream effects on growth hormone secretion and blood pressure. The presence of prostaglandin E stimulus supports a broader GPCR-mediated response. An electron transport chain term appears but does not define the main function of the cluster. Confidence: High","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0060124","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007191","count":3}]},{"hash":"750772893725108799","title":"APC/C-Driven Cell Cycle Regulation","description":"Proteins in this cluster are enriched for mitotic cell cycle, cell division, and anaphase-promoting complex\u2013dependent catabolic process, with K11-linked ubiquitination highlighting APC/C-mediated proteolysis. While a few terms like transcription and neuron development appear, the dominant signature is ubiquitin-dependent control of mitosis through APC/C, making this label representative.","confidence":"High","size":19,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007338","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0071276","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0030433","count":4}]},{"hash":"1514106905056029129","title":"Ribosome function and translational regulation","description":"The top GO terms center on translation and ribosome-related processes\u2014translation, translational termination, ribosome disassembly, and mitochondrial/translational elongation\u2014plus positive regulation of cytoplasmic translation and selenocysteine incorporation, all pointing to protein synthesis machinery and its regulation. Some terms about responses to antibiotics or viruses likely reflect stress-related modulation of translation. Overall, the cluster is best described by ribosome function and translational control across cellular compartments.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0006415","count":6},{"id":"GO:0046677","count":6},{"id":"GO:0032790","count":6},{"id":"GO:0009615","count":5}]},{"hash":"508121478499619855","title":"Lipid metabolism and adipogenesis","description":"This cluster shows a focus on lipid-related processes: unsaturated fatty acid biosynthesis, response to fatty acids, cholesterol esterification, and white fat cell differentiation, pointing to lipid metabolism and adipogenic differentiation as the core theme. Some terms are obsolete or organism-specific (e.g., insect tarsal gland development), but the prevailing signal centers on lipid biosynthesis and adipocyte-like regulation.","confidence":"Medium","size":19,"edges":16,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1903699","count":2},{"id":"GO:0010873","count":2},{"id":"GO:0033561","count":2},{"id":"GO:0044130","count":2},{"id":"GO:0000001","count":2}]},{"hash":"2206258500983643901","title":"Neural development and cell adhesion signaling","description":"The top GO terms point to neuron projection development, multicellular development, and cell adhesion, with supporting signaling cues from ERK/MAPK cascade and phosphorylation events that drive neural differentiation and neurite outgrowth. Cytoskeletal remodeling and substrate adhesion-dependent spreading further align with developing neurons interacting with their environment; thymus development appears as a secondary developmental signal. Overall, the cluster centrally reflects neural development and related adhesion/signaling processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0048538","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0034446","count":4}]},{"hash":"1685392686036557234","title":"Muscle-Cytoskeleton and Adhesion Network","description":"The top GO terms cluster around muscle adaptation and contraction regulation (denervation response, calcium-mediated contraction control), focal adhesion assembly and substrate adhesion-dependent spreading, muscle attachment, and actin/microtubule dynamics. This points to a shared theme of cytoskeletal organization and cell\u2013matrix adhesion underlying muscle structure and movement, with neuronal terms reflecting broader cytoskeletal architecture rather than a separate function. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014894","count":3},{"id":"GO:1900024","count":3},{"id":"GO:0048041","count":3},{"id":"GO:0016203","count":3},{"id":"GO:0014809","count":3}]},{"hash":"123794394519057650","title":"Mitochondrial Translation and Respiratory Chain Assembly","description":"This cluster centers on mitochondrial functions: mitochondrial translation and translational initiation, protein insertion into the mitochondrial membrane, cristae formation, and assembly of respiratory chain components, along with electron transport and aerobic respiration. Together these terms indicate a cohesive mitochondrial energy-production/biogenesis program, so the label reflects both the translation machinery and the assembly of the respiratory complexes.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0051204","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0042407","count":2}]},{"hash":"1132497184253367864","title":"Neural Sensory Perception and Drug Response","description":"A cluster dominated by GO terms for pain perception, visual perception/learning, brain signaling (including brain renin-angiotensin system and ERK cascade regulation), and behavioral drug responses (morphine, cocaine), suggesting a cohesive theme of neural sensory processing and drug-related behavior. Some terms like heart development and macrophage chemotaxis are present but do not override the central neural-sensory-behavior signal.","confidence":"Medium","size":19,"edges":130,"triangles":419,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0043547","count":13},{"id":"GO:0008542","count":12},{"id":"GO:0070374","count":12}]},{"hash":"2286281152119751556","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":9,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":4},{"id":"GO:0051412","count":2},{"id":"GO:0061484","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0046782","count":2}]},{"hash":"2220222159117278675","title":"Steroid hormone and vitamin D metabolism","description":"This cluster is driven by lipid- and steroid-related processes (androgen metabolic process, aldosterone biosynthetic process, cholesterol catabolic process) together with vitamin D biology (response to vitamin D, calcitriol biosynthetic process) and reproductive development terms (female gonad development, uterus development). The convergence of these GO terms suggests a coherent theme of steroid hormone biosynthesis/metabolism coupled to vitamin D pathways and reproductive development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0008209","count":4},{"id":"GO:0008585","count":4},{"id":"GO:0006707","count":4},{"id":"GO:0001516","count":4}]},{"hash":"2200426775802865770","title":"Synaptic development and plasticity","description":"The top terms cluster around neural development and synaptic function, with axonogenesis, long-term potentiation, and positive regulation of synapse assembly indicating a focus on establishing and strengthening neural connections. Additional terms point to mechanotransduction and extracellular matrix remodeling, which can influence synaptic connectivity. While a DNA repair term appears, the dominant theme is neural development and synaptic plasticity.","confidence":"High","size":19,"edges":24,"triangles":9,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0007409","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0002018","count":3},{"id":"GO:0071260","count":3}]},{"hash":"2095019388712066085","title":"Neuropeptide signaling and inflammation","description":"The top GO terms point to neural signaling (neuropeptide signaling, acetylcholine regulation) tightly connected with immune/inflammatory responses (defense against bacteria, inflammatory response) and ERK pathway regulation across multiple tissues (heart, lung, ovary). This suggests a general signaling/immune interface rather than a single tissue-specific process, hence a label emphasizing interconnected neural signaling and inflammatory responses.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0042742","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0007218","count":6},{"id":"GO:0007507","count":6}]},{"hash":"53958036698718780","title":"Neuronal development and actin cytoskeleton regulation","description":"The top GO terms strongly point to neural growth and remodeling (neuron projection development, neuron apoptotic processes) together with actin cytoskeleton dynamics (Arp2/3-mediated actin nucleation, GTPase activity regulation, protein oligomerization). These suggest a functional cluster centered on neuronal development and structural remodeling driven by cytoskeletal changes, with ancillary involvement from transcription and trafficking processes. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0034349","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0051402","count":2}]},{"hash":"1299474718569744913","title":"Immunological adhesion and synapse regulation","description":"The cluster is dominated by GO terms for cell-cell adhesion (heterophilic and homophilic) and immune signaling, including complement activation, immunoglobulin production, and negative regulation of NK, macrophage, and T cell activities. It also includes regulation of actin cytoskeleton at adhesion sites and synapse assembly, pointing to an immunological synapse/adhesion function that ties these proteins together.","confidence":"High","size":19,"edges":103,"triangles":224,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0002859","count":11},{"id":"GO:0042742","count":11},{"id":"GO:0006958","count":11}]},{"hash":"306700789548225154","title":"Cardiovascular development and contraction","description":"This cluster is driven by heart-related GO terms: heart development and cardiac muscle contraction appear among the top terms, suggesting a focus on cardiovascular development and heart muscle function. Other terms (intracellular transport, Rab signaling, transcription) indicate supporting cellular processes, implying a broad set of proteins with involvement in cardiac cells. Given the prominent heart-specific functions, the label reflects the likely common theme, with moderate confidence due to the presence of non-heart terms. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0032483","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1619831576321961734","title":"Unknown","description":"The cluster shows a mix of GO terms spanning oxidative stress response, DNA repair/recombination, cell cycle regulation, and several developmental/tissue-specific processes. There is no tight, single functional theme tying these proteins together, suggesting a heterogeneous set rather than a cohesive pathway. Therefore, I cannot assign a meaningful, specific label beyond Unknown.","confidence":"","size":19,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0021794","count":3},{"id":"GO:2000466","count":2},{"id":"GO:0014912","count":2},{"id":"GO:1903507","count":2}]},{"hash":"1897320403360574194","title":"Cytoskeletal remodeling and membrane repair","description":"The Top Terms emphasize lamellipodium assembly, actin nucleation and crosslinking, and plasma membrane repair, pointing to coordinated actin-driven cytoskeletal remodeling and membrane maintenance. While some terms touch on transcriptional signaling (NF-kappaB) and endocytosis regulation, the dominant theme is actin dynamics shaping the cell cortex and membrane integrity.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":4},{"id":"GO:0043588","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0043123","count":2}]},{"hash":"358168722010048661","title":"Clathrin-mediated endocytosis and GPCR internalization","description":"Most frequent GO terms describe endocytosis pathways: clathrin-dependent endocytosis and GPCR internalization. Ubiquitination also appears, consistent with receptor turnover and trafficking. A few terms (cell migration, cytolysis) are less central; overall the cluster seems to reflect proteins involved in receptor turnover and membrane trafficking rather than a single signaling pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0072583","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0016477","count":3}]},{"hash":"12574455862243166","title":"Unknown","description":"The top terms span sensory detection (sound), adaptive immune responses (immunoglobulin production, defense against bacteria), neural junctions, regulation of NK and T cell activity, cardiac depolarization, proteolysis, and ion transport. This broad mix suggests no single coherent function linking the proteins, so a generic Unknown label with no confidence is appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":9},{"id":"GO:0002250","count":7},{"id":"GO:0002377","count":7},{"id":"GO:0030913","count":7},{"id":"GO:0002859","count":6}]},{"hash":"1567978728930898840","title":"Developmental signaling and tissue development","description":"This cluster centers on GO terms related to tissue and organ development (heart, nervous system, skeletal, lens) and includes signaling-related processes (Rho signal transduction, calcium-dependent exocytosis, caveolin-mediated endocytosis). While some terms (response to glucose stimulus, dsRNA response) are more general stress responses, the repeated emphasis on developmental processes and membrane trafficking suggests a cohesive theme around developmental signaling and tissue formation. ","confidence":"Medium","size":19,"edges":129,"triangles":467,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071333","count":17},{"id":"GO:0043330","count":17},{"id":"GO:0007266","count":12},{"id":"GO:0045956","count":12},{"id":"GO:0007507","count":12}]},{"hash":"304495947932492883","title":"GPCR-cAMP Signaling and Thermogenic Regulation","description":"This cluster centers on adenylate cyclase activation and GPCR signaling, implying cAMP-mediated transduction, with related thermogenic and metabolic regulation (diet-induced thermogenesis, blood pressure). The inclusion of electron transport, temperature response, pain perception, and learning hints at broader neural and metabolic roles, suggesting a cohesive theme around signaling-linked metabolic/thermogenic and neural functions, though the terms are diverse. ","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0071502","count":13}]},{"hash":"89505400741042731","title":"Neural GPCR Signaling with Neuroimmune Chemotaxis","description":"The terms converge on G protein-coupled receptor pathways (adenylate cyclase activation, PLC-activating serotonin signaling, opsin signaling) and neural functions (visual learning, operant conditioning), with chemotaxis regulation in astrocytes and eosinophils. This suggests a theme of GPCR-mediated signaling impacting brain function and neuroimmune cell movement, rather than a single cohesive tissue-specific process.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":19},{"id":"GO:0035106","count":19},{"id":"GO:0007190","count":19},{"id":"GO:2000484","count":19},{"id":"GO:0007208","count":19}]},{"hash":"1628429848484459253","title":"Genome Maintenance and DNA Repair","description":"This cluster is dominated by GO terms related to DNA processing, including base-excision repair and DNA replication, with several terms (apoptotic process, trinucleotide repeat maintenance, and kinase activity regulation) that can be connected to cellular responses to genome stress. Although some terms are outliers or obsolete, the strongest common theme is genome maintenance and DNA repair pathways. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0035753","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0006260","count":2}]},{"hash":"569224505514125198","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms cluster around ubiquitin-dependent proteolysis, including SCF-dependent proteasomal degradation and polyubiquitination, indicating a proteasome-driven protein turnover theme. While there are additional links to circadian rhythm regulation and stress-induced apoptotic signaling, the dominant signal is the ubiquitin\u2013proteasome pathway.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":10},{"id":"GO:0031146","count":10},{"id":"GO:1903378","count":9},{"id":"GO:0021678","count":9}]},{"hash":"85612483384519538","title":"Ubiquitin-Mediated Degradation and Antiviral Defense","description":"The top terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, K63-linked ubiquitination, autoubiquitination, ERAD), with innate immune response and defense against virus also prominent. This suggests a functional cluster of proteins involved in ubiquitin-mediated protein turnover that supports antiviral immune responses; a vitamin D response term and protein homooligomerization are present but less central, and a SA node regulation term likely represents noise. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0033280","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0045087","count":4}]},{"hash":"656441180400473628","title":"Developmental signaling and differentiation","description":"The terms cluster around signaling pathways that govern cell fate and tissue development\u2014Notch receptor processing, TNF signaling, synapse assembly, cardiac morphogenesis, endocardial and epidermal differentiation, and PI3K/AKT pathway regulation\u2014spanning neural, heart, and skin lineages. This suggests a general theme of developmental signaling rather than a single function; hence the label Developmental signaling and differentiation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007220","count":10},{"id":"GO:0034612","count":10},{"id":"GO:0007416","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0030216","count":10}]},{"hash":"1652426536708837340","title":"Neural crest\u2013driven neuron migration and synapse assembly","description":"This cluster centers on neural crest\u2013derived neural development, with terms for neuron migration, sympathetic neuron projection extension, juxtaparanode localization, and synapse assembly, plus PI3K/AKT signaling. Cardiac-related terms likely reflect neural crest contributions to heart development, suggesting a broader neural development theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0071205","count":5},{"id":"GO:0097490","count":5},{"id":"GO:0003222","count":5},{"id":"GO:0001764","count":5}]},{"hash":"1305137267486906934","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms cluster around embryogenesis, organ development, and morphogenetic processes (palate, cartilage, mesoderm, hair follicle morphogenesis, EMT in heart development), indicating a coherent theme of developmental biology and tissue patterning.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0003198","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0060536","count":12},{"id":"GO:0060806","count":12}]},{"hash":"1641294973503000266","title":"Embryonic Development and Morphogenesis","description":"The GO terms are all development-related across multiple tissues and stages (left/right patterning, mesoderm development, cartilage morphogenesis, endocardial cushion EMT, organ formation like placenta, hair follicles, pancreas, and teeth-related roof of the mouth), indicating a cohesive role in embryogenesis and tissue morphogenesis rather than a single tissue function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":15},{"id":"GO:0060972","count":15},{"id":"GO:0060536","count":15},{"id":"GO:0060806","count":15},{"id":"GO:0060707","count":15}]},{"hash":"2019687118586420082","title":"Nuclear transport and meiotic cell-cycle regulation","description":"The GO terms cluster around import into the nucleus (NLS-bearing import), nuclear pore complex assembly, and meiotic processes (female meiotic nuclear division, meiotic spindle elongation), suggesting a cohesive role in nuclear trafficking and meiosis/cell-cycle control. Additional terms related to ciliary docking and serine dephosphorylation may reflect broader signaling integration with cell-cycle events; TORC1 signaling and endothelial proliferation could represent auxiliary growth-regulation connections. Overall, the dominant theme is nuclear transport and meiotic/cell-cycle regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:2001241","count":8},{"id":"GO:0007143","count":7},{"id":"GO:0038202","count":7}]},{"hash":"1000446826446755476","title":"Unknown","description":"The GO terms point to a wide range of tissue-specific developmental processes (heart SA node and ventricular development, substantia nigra, skin barrier) plus general cellular responses (apoptosis, autophagy, mechanical stimulus sensing). There is no clear, common function or pathway tying these proteins together, so a single cohesive label cannot be inferred.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":7},{"id":"GO:0060291","count":5},{"id":"GO:2001275","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0071260","count":4}]},{"hash":"2174791076420092063","title":"JNK/MAPK Signaling and Cell Migration","description":"This cluster is dominated by GO terms for JNK cascade regulation and JUN phosphorylation, indicating activation of the stress-activated MAPK pathway and AP-1\u2013type transcription. The presence of cell migration and filopodium assembly terms, along with positive regulation of GTPase activity, points to cytoskeletal remodeling linked to MAPK signaling. While DNA-templated transcription and Wnt-related terms appear, the strongest cohesive theme centers on MAPK/JNK signaling driving transcriptional responses and migratory behavior.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0007258","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1207331009034821523","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006400","count":2},{"id":"GO:0070884","count":2},{"id":"GO:0033173","count":2},{"id":"GO:0034608","count":2},{"id":"GO:0046008","count":2}]},{"hash":"1852582459896607386","title":"Heart Development and Angiogenesis","description":"The cluster shows enrichment for heart development and angiogenesis (GO:0007507 and GO:0001525, three proteins each), suggesting a cardiovascular/vasculature development theme. Other terms like dopamine response and immune signaling appear but are less central to the cluster\u2019s core function. Overall, the dominant cardiovascular terms indicate a link to heart and vessel formation and remodeling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0001525","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0034976","count":3}]},{"hash":"1325510293285512140","title":"Unknown","description":"The top terms span chromatin remodeling (nucleosome disassembly, histone modification), metabolism (sucrose and alcohol catabolic processes, gluconeogenesis regulation), development (uterus morphogenesis), immune signaling (interleukin-6 production), and biofilm-related adhesion, with several annotations marked obsolete. There are no edges or cohesive connections among the proteins, so no single shared function emerges for the cluster. Therefore, a specific label cannot be reliably assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006337","count":3},{"id":"GO:0043970","count":3},{"id":"GO:0061038","count":3},{"id":"GO:1905524","count":3},{"id":"GO:0032635","count":3}]},{"hash":"429622264906615960","title":"Embryonic organogenesis and tissue morphogenesis","description":"The GO terms cluster around development and morphogenesis of multiple vertebrate organs (pancreas, craniofacial structures, neural crest, digestive tract, kidney branching, heart, lung, muscle), indicating a broad theme of embryonic organ formation rather than a single pathway. Some transcription-related terms are present, but the dominant theme is organogenesis and tissue patterning.","confidence":"High","size":18,"edges":133,"triangles":555,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0031018","count":11},{"id":"GO:0060021","count":10},{"id":"GO:0001755","count":10},{"id":"GO:0048557","count":10}]},{"hash":"1763736174090094785","title":"Neurodevelopmental Signaling and Axon Guidance","description":"Based on the GO terms, the cluster is dominated by neural development processes (neurogenesis, axon guidance, myelination, trigeminal nerve development) and related signaling (BMP signaling, STAT phosphorylation). While a few terms touch immune modulation, the strongest signal is neural development and associated signaling pathways, justifying a neural-development-focused label.","confidence":"High","size":18,"edges":7,"triangles":0,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":3},{"id":"GO:0021740","count":3},{"id":"GO:0002859","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0042523","count":3}]},{"hash":"2117800337989581970","title":"Transmembrane Transporters","description":"This cluster centers on transmembrane transport genes, with GO terms for phosphate, nitrite, arabinose, galactose, vitamin, and xenobiotic transport, plus vesicular neurotransmitter loading. The common theme is membrane transport of diverse solutes, suggesting these proteins function as transporters or carriers across membranes.","confidence":"High","size":18,"edges":101,"triangles":288,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":6},{"id":"GO:1900754","count":6},{"id":"GO:0035461","count":6},{"id":"GO:0035725","count":6},{"id":"GO:0015751","count":6}]},{"hash":"2135046005267260629","title":"Vascular development and coagulation","description":"The top GO terms cluster around vascular biology: endothelial barrier establishment, blood coagulation, fibrinolysis, and elastin catabolic processes all point to vascular function and extracellular matrix remodeling. While midbrain development and Toll signaling are present, the dominant pattern centers on vascular development and coagulation-related processes, suggesting this cluster reflects endothelial integrity and clotting/remodeling pathways. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":7},{"id":"GO:1903142","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0030194","count":6},{"id":"GO:0071333","count":6}]},{"hash":"549069206144475691","title":"Regulation of signaling and cell motility","description":"The top GO terms include multiple regulatory signaling processes (NFAT, non-canonical NF-\u03baB, miRNA silencing) alongside cytoskeletal and motility-related terms (lamellipodium assembly, axon guidance). Although spanning diverse tissues, the common thread is proteins that modulate signaling pathways and cellular movement, suggesting a shared function in signaling regulation and cytoskeletal dynamics rather than a single tissue-specific process.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090334","count":9},{"id":"GO:0060396","count":9},{"id":"GO:0045856","count":8},{"id":"GO:0070886","count":8},{"id":"GO:0030032","count":8}]},{"hash":"44151181279759658","title":"Developmental Signaling Pathways","description":"The cluster groups proteins involved in multiple signaling pathways that guide development and cellular communication (Rho, Hedgehog/Smoothened, ROBO, T cell receptor, synaptic vesicle regulation, myoblast fusion). This spread suggests a broad role in coordinating development across tissues rather than a single process.","confidence":"Medium","size":18,"edges":131,"triangles":539,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":9},{"id":"GO:0035023","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0007224","count":8},{"id":"GO:0007399","count":8}]},{"hash":"1044500334796618544","title":"Gram-positive envelope and secondary metabolite biosynthesis","description":"This cluster is best labeled for its focus on biosynthetic and envelope-related pathways in bacteria: menaquinone biosynthesis and lipoteichoic acid biosynthesis point to Gram-positive cell envelope and respiration-linked metabolism, while siderophore and antibiotic biosynthesis indicate secondary metabolite production. The presence of bioluminescence further supports microbial secondary metabolism; together with malonate and phenylacetate catabolic terms, the data suggest a cohesive theme of metabolite production and envelope biogenesis in bacteria.","confidence":"High","size":18,"edges":73,"triangles":122,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":8},{"id":"GO:0017000","count":6},{"id":"GO:1902987","count":6},{"id":"GO:0070395","count":6},{"id":"GO:0009698","count":5}]},{"hash":"946881836587666888","title":"Tissue remodeling and biomineralization","description":"Based on the top GO terms, the cluster centers on processes that modify tissue architecture and mineralization: positive regulation of blood coagulation, fibrinolysis, elastin catabolic process, and biomineral tissue development, as well as Toll signaling related to inflammation in tissue remodeling. Although there are some development/metabolic terms (midbrain development, cellular response to glucose), the recurring ECM/biomineral and coagulation signals point to a theme of tissue remodeling and formation of mineralized connective tissues. Therefore, \"Tissue remodeling and biomineralization\" best captures the shared function of these proteins.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030194","count":7},{"id":"GO:0031214","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0071333","count":5}]},{"hash":"676698923780587510","title":"Ribosome biogenesis and translation initiation","description":"The cluster shows strong representation of ribosome biogenesis and multiple facets of translation initiation and regulation (ribosome biogenesis, formation of the preinitiation complex, translation initiation regulation, translation reinitiation, and IRES-dependent viral translation). While some terms touch on growth signals and development (insulin signaling, embryonic development, cell proliferation), the dominant theme is components and control of protein synthesis machinery, suggesting a cohesive translation-centric group.","confidence":"High","size":18,"edges":52,"triangles":47,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0034260","count":3}]},{"hash":"107127448562867558","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome biogenesis and function: translation, maturation of SSU-rRNA, and ribosomal small subunit assembly, with related protein complex formation and membrane-targeting aspects. This pattern strongly suggests a group of proteins involved in ribosome assembly and the translation machinery, with some ancillary quality-control or targeting roles. ","confidence":"High","size":18,"edges":36,"triangles":33,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0051259","count":3}]},{"hash":"997849320703184241","title":"Cardiac and Skeletal Muscle Development","description":"Dominant terms center on heart morphogenesis and heart development, with several terms about muscle cell differentiation and fate specification, suggesting a cardiac/muscle development theme. Less central are mitotic cell cycle/cell division terms; calcium ion detection and innate immune response appear as incidental annotations.","confidence":"Medium","size":18,"edges":19,"triangles":5,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0005513","count":2},{"id":"GO:0003007","count":2}]},{"hash":"2126497982333911629","title":"Spliceosome-Driven mRNA Splicing Regulation","description":"The cluster is strongly enriched for GO terms related to splicing and spliceosome-mediated processing (positive regulation and regulation of alternative splicing, splice site recognition, and general mRNA splicing), as well as regulatory layers affecting mRNA stability and translation (miRNA silencing, IRES-dependent translation). This points to a coherent theme centered on RNA processing and post-transcriptional regulation via the spliceosome.","confidence":"High","size":18,"edges":41,"triangles":33,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11},{"id":"GO:0006378","count":10},{"id":"GO:0045292","count":10},{"id":"GO:1901407","count":9}]},{"hash":"1782103154517942092","title":"Matrix remodeling and membrane trafficking","description":"The most represented terms point to remodeling of the extracellular matrix and membrane dynamics (extracellular matrix disassembly, endocytic recycling, plasma membrane tubulation, and cell morphogenesis) with involvement of GTPase-regulated signaling that governs cytoskeletal and membrane remodeling. Some terms (Wnt signaling, defense response) are present but appear ancillary to the core theme. Overall, the cluster seems to group proteins involved in matrix remodeling and membrane trafficking/morphogenesis rather than a single defined pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022617","count":3},{"id":"GO:1990126","count":3},{"id":"GO:0097320","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0043547","count":3}]},{"hash":"474666181938184462","title":"Neural Development and Synaptic Signaling","description":"Based on the top GO terms, the cluster is strongly enriched for nervous system development, corticospinal tract morphogenesis, and chemical synaptic transmission, plus regulation of synaptic vesicle clustering. While a few terms touch on general development (bone ossification, endocardial cushion migration), the dominant theme is neural development and synaptic communication, justifying the label.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":18},{"id":"GO:0007399","count":18},{"id":"GO:0007157","count":18},{"id":"GO:0021957","count":17},{"id":"GO:0007268","count":17}]},{"hash":"862773345645763580","title":"Unknown","description":"The GO terms are highly diverse, covering virus defense, histone mRNA turnover, endothelial migration, translation, neural tube closure, renal sodium absorption, spindle-related localization, ubiquitin-dependent degradation, swimming, and protein homooligomerization. There is no clear shared function tying these proteins together, so a single cohesive label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0071044","count":3},{"id":"GO:0010596","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1769110919320582784","title":"Circadian regulation of transcription and splicing","description":"The top GO terms cluster around circadian rhythm and its regulation, with multiple entries for positive regulation of circadian rhythm and RNA splicing plus regulation of DNA-templated transcription initiation. This points to a functionally cohesive theme of time-of-day\u2013dependent control of gene expression, integrated with mRNA processing (spliceosome\u2013mediated splicing). Some apoptosis-related terms appear but the dominant signal is circadian transcriptional and splicing regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007623","count":4},{"id":"GO:0030521","count":4},{"id":"GO:0000381","count":4},{"id":"GO:2000144","count":4},{"id":"GO:0042753","count":4}]},{"hash":"1556281883205631637","title":"Wnt-Hippo-ERK Signaling in Differentiation","description":"This cluster centers on multiple signaling pathways (canonical Wnt, Hippo, ERK) with supporting terms tied to differentiation and growth control (keratinocyte differentiation, dendrite morphogenesis, apoptotic process, regulation of cardiac proliferation). The convergence of these pathways plus differentiation and morphogenesis terms suggests an integrated signaling network governing cell fate decisions across tissues, rather than a single pathway.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0043552","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0060044","count":14},{"id":"GO:0030216","count":14}]},{"hash":"530620772276162118","title":"Mitochondrial respiration and ATP synthesis","description":"The top GO terms cluster around mitochondrial energy metabolism: assembly of respiratory chain complexes I, II, and IV; ATP synthesis coupled to electron transport; proton motive force-driven ATP production; and electron transfer from NADH to ubiquinone and cytochrome c to oxygen. The presence of a mitochondrial-related translation term and a link to apoptosis also align with mitochondrial function. Overall, this set strongly points to mitochondrial respiration and energy production as the central theme.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0032981","count":2},{"id":"GO:0042776","count":1}]},{"hash":"2079226399429427883","title":"Immune Response Signaling","description":"The cluster is most characterized by terms tied to immune activity, including innate immune response, adaptive immune response, and T cell proliferation, suggesting these proteins are enriched for immune signaling functions. Other terms like transcytosis and differentiation processes appear but are less central to the core theme, so the immune-related terms best define the group.","confidence":"Medium","size":18,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0045056","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0002250","count":2}]},{"hash":"1324160496554222979","title":"Actin Cytoskeleton in Migration and Immunity","description":"This cluster centers on actin cytoskeleton remodeling (cortical patches, bundle formation, branching), enabling cell migration and polarity establishment, and extending to immune-related processes such as immunological synapse formation and innate immune responses. Additional membrane remodeling terms (membrane invagination, plasma membrane tubulation) reinforce a theme of actin-driven membrane dynamics coordinating movement, shape, and immune interactions.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0090162","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0071963","count":4}]},{"hash":"1719773588193209631","title":"RNA splicing and post-transcriptional regulation","description":"These proteins show strong enrichment for mRNA splicing and spliceosome-related regulation (splice site recognition, alternative splicing, spliceosome regulation), plus related post-transcriptional controls such as mRNA stability under stress and RNA silencing by ncRNAs/miRNAs. The cluster therefore centers on post-transcriptional RNA processing and gene-silencing mechanisms.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0006376","count":9},{"id":"GO:0075522","count":9}]},{"hash":"67172416859787460","title":"Neuron Projection Growth and Microtubule Dynamics","description":"The cluster\u2019s dominant GO terms center on neuronal development and axon growth, including neuron projection development, positive regulation of axon extension, CNS neuron development, and microtubule-related processes (microtubule bundle formation and microtubule sliding) as well as calcium signaling regulation. These together suggest proteins participating in neuronal growth, projection formation, and cytoskeletal dynamics; the memory term is peripheral but not conflicting.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048672","count":2},{"id":"GO:0001578","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0021954","count":2},{"id":"GO:0050848","count":2}]},{"hash":"701666285229889156","title":"Peroxisome Biogenesis and Dynamics","description":"The top GO terms cluster around peroxisome biology\u2014membrane biogenesis, inheritance, fission, ER-dependent organization, and import into the peroxisome\u2014indicating a cohesive role in peroxisome assembly and maintenance (with a few incidental transcription regulation notes). Confidence: High","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0032581","count":1},{"id":"GO:0045033","count":1},{"id":"GO:0016557","count":1},{"id":"GO:0050821","count":1}]},{"hash":"1112792654901740505","title":"DNA Replication, Transcription, and Cell Cycle","description":"The cluster is dominated by core nuclear processes: DNA replication (GO:0006260) and DNA-templated transcription (GO:0006351), plus mitotic cell cycle (GO:0000278) and translation (GO:0006412) signals, suggesting involvement in fundamental gene expression and cell division machinery. Obsolete salvage terms are noise and do not change the overall theme. This combination points to a cohesive theme of nuclear gene expression coupled to cell cycle control.","confidence":"High","size":18,"edges":113,"triangles":398,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046677","count":6},{"id":"GO:0000902","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006412","count":5},{"id":"GO:0032092","count":5}]},{"hash":"1358214367315969244","title":"GI Endocrine Secretion and Signaling Regulation","description":"Interpretation centers on regulation of secretion and signaling in endocrine and gastrointestinal contexts, as evidenced by GO terms for pancreatic juice secretion, somatostatin secretion, and suppression of gastric acid, alongside positive regulation of adenylate cyclase-activating adrenergic signaling and glycogen synthase activity. The ER unfolded protein response and xenobiotic stress terms suggest secretory cell stress, while epithelial differentiation points to broader tissue context. Taken together, the dominant theme is secretion and signaling control in endocrine/GI physiology.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":2},{"id":"GO:0044027","count":2},{"id":"GO:0090187","count":2},{"id":"GO:0071879","count":2},{"id":"GO:1903640","count":2}]},{"hash":"1389859941599479393","title":"Stress-Responsive Pro-survival PI3K/AKT and ERK Signaling","description":"This cluster centers on pro-survival and stress-response pathways: activation of PI3K/AKT and ERK cascades, plus negative regulation of necroptosis and neuron apoptosis, all pointing to cellular survival signaling under stress. Additional terms reflect xenobiotic and oxidative stress responses (cadmium exposure, hydrogen peroxide regulation) and lysosomal membrane changes, reinforcing a cohesive theme of adaptive, pro-survival signaling rather than overt apoptosis.","confidence":"High","size":18,"edges":6,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060546","count":5},{"id":"GO:0043491","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0032148","count":5},{"id":"GO:0007263","count":5}]},{"hash":"1763196450034616454","title":"Neural development and synaptic signaling","description":"This cluster is dominated by terms related to neural development and function, including Schwann cell development, axonogenesis, visual perception, and excitatory postsynaptic potentials, pointing to a neural development/synaptic activity theme. Additional terms on signaling regulation and apoptosis support this direction, while a couple of outliers (cell cycle and plant hormone signaling) may reflect broader regulatory roles or annotation noise.","confidence":"Medium","size":18,"edges":11,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0007409","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0000086","count":10}]},{"hash":"1392439951439158307","title":"B Cell Signaling and Cytokine Regulation","description":"The top GO terms mainly point to immune signaling: innate and adaptive immune responses, B cell receptor signaling, cytokine production (IL-2, IL-10), and regulation of macrophage activation and interferon pathways, indicating a cohesive function in immune communication and cytokine control. A couple terms on bone development and myelination appear but are likely unrelated annotations.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0002374","count":3},{"id":"GO:1900042","count":3},{"id":"GO:0002250","count":3}]},{"hash":"245091132332786335","title":"Neural development and hair follicle morphogenesis","description":"The top terms cluster around nervous system development and morphogenesis of ectodermal structures, including hair follicles and salivary glands, with signaling pathways like ERK and Wnt regulating these processes. This suggests a cohesive theme of neural development and skin/appendage morphogenesis driven by shared signaling cues.","confidence":"Medium","size":18,"edges":71,"triangles":114,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":11},{"id":"GO:0031532","count":11},{"id":"GO:0090263","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0060501","count":11}]},{"hash":"799159001399286817","title":"Neuromuscular and vascular development","description":"The top GO terms cluster around development and maturation of neural/glial elements (Schwann cell development, axonogenesis, visual perception), muscle formation (myoblast fusion, response to muscle activity), heart development, and blood vessel formation (angiogenesis), with supporting terms related to cell cycle and synaptic signaling. Taken together, these terms point to coordinated development and connectivity of neural, muscular, and vascular tissues, i.e., neuromuscular and vascular development. ","confidence":"High","size":18,"edges":139,"triangles":627,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0007520","count":17},{"id":"GO:0007409","count":17},{"id":"GO:0007601","count":17}]},{"hash":"855321816186680276","title":"Nuclear RNA processing and splicing regulation","description":"The cluster is dominated by GO terms tied to mRNA splicing via the spliceosome (positive regulation and general splicing) and termination of RNA polymerase II transcription, plus nuclear mRNA surveillance and rRNA maturation. These collectively point to a core theme of RNA metabolism in the nucleus, especially pre-mRNA processing and transcription termination, with some secondary links to regulatory ncRNA silencing and ribosomal RNA maturation. A few terms like viral genome replication and exploration behavior appear as outliers or broader associations rather than core features of this module.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":15},{"id":"GO:0031047","count":15},{"id":"GO:0006369","count":12},{"id":"GO:0000398","count":12},{"id":"GO:0019079","count":11}]},{"hash":"1084784112312059677","title":"Vertebrate neural and organ development","description":"Top GO terms span multicellular development and multiple organ systems\u2014bone ossification, heart development, otolith morphogenesis\u2014along with neural differentiation features like myelination, axonal fasciculation, and synapse assembly, suggesting a cohesive theme of vertebrate organogenesis and nervous system maturation.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0042552","count":7},{"id":"GO:0032474","count":7},{"id":"GO:0007413","count":7}]},{"hash":"1020939228792211454","title":"Mitochondrial apoptosis signaling","description":"The cluster is dominated by GO terms tied to mitochondrial stress and the intrinsic apoptosis pathway, including cytochrome c release, mitochondrial fragmentation, calcium regulation, and responses to hypoxia/ROS. This points to a cohesive role in mitochondria-driven apoptosis and stress signaling, with a couple of peripheral terms (e.g., B cell homeostasis, male gonad development) that are less central to the core theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000378","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0090200","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1383083608173057957","title":"GPCR-Mediated Signaling (Vision and Brain)","description":"The Top Terms largely point to G-protein-coupled receptor signaling: adenylate cyclase activation (Gs), phospholipase C-activating serotonin receptor signaling (Gq), and opsin-mediated signaling (visual GPCR). The presence of visual learning and operant conditioning supports a neural/vision-related GPCR context, while terms like regulation of blood pressure, astrocyte chemotaxis, eosinophil chemotaxis, and IL-8 production reflect GPCR roles in vascular, glial, and immune responses. Together, these terms suggest a cohesive GPCR signaling cluster spanning vision, brain function, and broader physiological signaling.","confidence":"High","size":18,"edges":69,"triangles":83,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":15},{"id":"GO:0035106","count":15},{"id":"GO:0007190","count":15},{"id":"GO:2000484","count":15},{"id":"GO:0007208","count":15}]},{"hash":"1323488877802600181","title":"Placental and Embryonic Development","description":"The top GO terms cluster around placenta development, trophoblast differentiation, and various embryonic morphogenesis processes (epithelial-to-mesenchymal transition in cardiac structures, left-right pattern formation, cartilage morphogenesis, roof of the mouth development, pancreatic endocrine development, and broader endocrine system development). This suggests a shared role in embryogenesis with a strong emphasis on placental/trophoblast lineage and organ/tissue morphogenesis. The two housekeeping terms (ribosomal export and DNA replication initiation) appear incidental to the main developmental themes. ","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003323","count":14}]},{"hash":"279041188891439491","title":"Developmental signaling and differentiation pathways","description":"The cluster combines enrichment in major signaling cascades (ERK, Wnt, Hippo) with developmental and differentiation processes (inner ear development, cartilage condensation, keratinocyte differentiation), plus related activities like dopaminergic synaptic transmission, macrophage chemotaxis, and apoptosis, indicating a cohesive theme of developmental signaling driving differentiation and organogenesis.","confidence":"Medium","size":18,"edges":48,"triangles":99,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0001963","count":7},{"id":"GO:0048839","count":6},{"id":"GO:0010759","count":6},{"id":"GO:0001502","count":6}]},{"hash":"1464257339614491979","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":4,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045600","count":4},{"id":"GO:0015015","count":4},{"id":"GO:0015012","count":4},{"id":"GO:0030573","count":4},{"id":"GO:0042403","count":4}]},{"hash":"1237190923516850618","title":"Unknown","description":"The top GO terms show a scattered mix of processes\u2014ubiquitin/ERAD, GPCR signaling, NF-kappaB regulation, cell death, mitosis, nuclear envelope dynamics, lipid droplet organization, and antibacterial peptide regulation\u2014many of which are obsolete. This lack of a unifying theme indicates the cluster may be functionally heterogeneous or reflect annotation noise, so Unknown.","confidence":"","size":18,"edges":147,"triangles":728,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0007205","count":4},{"id":"GO:0061060","count":4},{"id":"GO:0008219","count":4},{"id":"GO:0007253","count":4}]},{"hash":"578344162198726591","title":"GPCR Endocytosis and Growth Factor Signaling","description":"The cluster\u2019s top GO terms are dominated by receptor trafficking and endocytosis (clathrin-dependent endocytosis; GPCR internalization) with downstream signaling pathways (GTPase activity regulation; SMAD, PI3K/AKT, IGF receptor signaling). While there are also terms related to metabolism and immune function (fatty acid oxidation regulation; B cell homeostasis) these support the broader link between receptor internalization and growth-factor\u2013driven signaling. Therefore, a concise label focusing on GPCR endocytosis coupled to growth factor signaling best captures the core theme.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032094","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0007184","count":3}]},{"hash":"613282313587263684","title":"Immune defense and antibody diversification","description":"This cluster is enriched for innate immune terms (innate immune response, response to lipopolysaccharide, clearance of foreign intracellular DNA) and for somatic hypermutation of immunoglobulin genes, indicating immune defense and antibody gene diversification as the core theme. Some other terms relate to development or tissue remodeling, which may reflect broader gene roles or annotation noise, but immunity-related functions predominate in the set.","confidence":"Medium","size":18,"edges":44,"triangles":46,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0009972","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0060538","count":5},{"id":"GO:0071222","count":5}]},{"hash":"2139976267913369513","title":"Cerebral cortex development and neuronal migration","description":"The Top GO terms cluster around brain development (cerebral cortex development, neuron migration, axon choice point recognition, third ventricle development) with supporting cytoskeletal processes (microtubule nucleation, mitotic spindle orientation) and signaling (GTPase regulation). This combination points to neural development driven by cytoskeletal dynamics, so the label captures the main theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":4},{"id":"GO:0000132","count":3},{"id":"GO:0090630","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0007020","count":2}]},{"hash":"1743467810386090490","title":"Neuronal ion transport and synaptic signaling","description":"The terms cluster around ionic movements across membranes (sodium, potassium, calcium transport), membrane depolarization, and excitatory postsynaptic potentials, all fundamental to nerve impulse transmission and synaptic communication. Additional items reference mechanosensory detection (hearing) and paranodal junctions, reinforcing a neural signaling theme, with a secondary note that acrosome reaction relates to membrane fusion/calcium signaling. Overall, the cluster centers on neuronal signaling and ion-channel\u2013driven excitability.","confidence":"Medium","size":18,"edges":23,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":6},{"id":"GO:0050910","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0051899","count":5},{"id":"GO:0071805","count":5}]},{"hash":"1440784180286486519","title":"Cytoskeletal Dynamics and Cell Cycle Regulation","description":"The top terms point to actin/cytoskeleton remodeling (filopodium assembly), membrane repair, and core cell-cycle processes (mitosis, spindle orientation, growth, GTPase signaling), suggesting a module of structural dynamics linked to division and growth. Some transcription and antiviral defense terms may reflect broader signaling roles or annotation overlap, but the dominant theme appears to be cytoskeletal remodeling coupled with cell-cycle control.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051489","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0006351","count":2}]},{"hash":"1197003353161290895","title":"Neural development and immune modulation","description":"The dominant terms center on neural processes like myelination, synapse assembly, and cell adhesion, indicating nervous system development. Concurrent immune-related terms (complement activation, macrophage regulation, NK cell regulation) suggest immune modulation. Together, this points to neuroimmune signaling as a unifying theme for the cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042552","count":7},{"id":"GO:1905065","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0051965","count":6}]},{"hash":"2039771378671558856","title":"Neural inflammation, pain, and vascular signaling","description":"The top GO terms combine neural functions (visual learning, brain renin-angiotensin system) with immune/inflammatory responses (inflammatory response, response to lipopolysaccharide, morphine response) and vascular processes (vasoconstriction, blood coagulation, heart development), suggesting a theme where neural signaling intersects with immune activation and vascular regulation, i.e., neuroinflammation and nociceptive signaling with vascular involvement.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0006954","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0032496","count":6}]},{"hash":"757697559530118571","title":"Mitochondrial Metabolite Transport","description":"Most top GO terms highlight transmembrane transport of metabolites into/out of mitochondria (phosphate, CoA, citrate, thiosulfate, heme) and related metabolic shuttles (malate-aspartate). This points to proteins involved in mitochondrial transport and exchange of key metabolites; secondary terms like insulin response and necroptosis regulation likely reflect broader cellular regulation rather than a shared function of the cluster.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":15},{"id":"GO:0035349","count":15},{"id":"GO:0000002","count":15},{"id":"GO:0043490","count":15},{"id":"GO:0060546","count":15}]},{"hash":"1775058161370484887","title":"Membrane Trafficking and Receptor Signaling","description":"The top GO terms point to regulation of membrane-associated signaling and trafficking: pinocytosis, GPCR-related signaling, ephrin receptor pathway regulation, and receptor localization to synapse affecting synaptic plasticity; plus lipid remodeling and cell growth/migration, all suggesting a coordinated membrane signaling/trafficking module rather than a single enzyme activity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048549","count":9},{"id":"GO:0007205","count":9},{"id":"GO:1901187","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0045444","count":8}]},{"hash":"640699564331683709","title":"Inflammation-associated apoptosis regulation (TNF/IL-1)","description":"Top GO terms indicate strong ties to inflammatory signaling (inflammatory response, response to interleukin-1, positive regulation of TNF production) and a suite of apoptotic pathways (extrinsic and intrinsic) plus related signaling (DNA damage response, PI3K/AKT). The combination suggests a cohesive role in balancing apoptosis and inflammatory responses, often mediated by TNF and IL-1. Therefore, the cluster is best described as inflammation-associated regulation of apoptosis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1902042","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0032760","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0008630","count":2}]},{"hash":"1526937653537883698","title":"Neuronal Synapse Organization and Signaling","description":"The cluster's frequent terms center on synapse structure and activity (synapse organization, vesicle clustering, membrane hyperpolarization, sodium transport), indicating a neuronal signaling/theme; a few terms hint at neuronal survival/regulation within this context.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0043524","count":3},{"id":"GO:2000809","count":3},{"id":"GO:0060081","count":2},{"id":"GO:0035725","count":2}]},{"hash":"632927562167390275","title":"Migration and cytoskeletal remodeling in development","description":"This cluster centers on cell movement and actin-based protrusions (lamellipodium/filopodium), mechanical signaling, and JNK pathway regulation, with additional development-related terms (bone, heart, uterus) suggesting morphogenesis. While innate immune signaling is present, the strongest shared theme is migration and cytoskeletal remodeling during development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0060348","count":9},{"id":"GO:0060065","count":8},{"id":"GO:0016477","count":7},{"id":"GO:0007507","count":7}]},{"hash":"610032054933306447","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":5},{"id":"GO:0000398","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2}]},{"hash":"2034141862987608103","title":"Neuronal cytoskeleton and development","description":"The top GO terms cluster around neuron development, regulation of microtubule cytoskeleton organization, and alpha-tubulin acetylation, suggesting a focus on neuronal cytoskeleton and neural development. Some other terms (renal sodium absorption, tetrahydrofolate interconversion, histidine catabolic processes) appear less connected and may reflect broader multifunctionality or annotation noise.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":3},{"id":"GO:0070294","count":3},{"id":"GO:0035999","count":2},{"id":"GO:0019557","count":2},{"id":"GO:0019556","count":2}]},{"hash":"966327870925875689","title":"Inflammation-driven coagulation and ECM remodeling","description":"The GO terms cluster around acute-phase inflammatory response, coagulation and fibrinolysis, and collagen biosynthesis/remodeling, with embryo implantation linking to extracellular matrix changes. Together they suggest inflammation-associated tissue remodeling and extracellular matrix dynamics as the core function of this protein group, with some broader signaling terms included. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006953","count":4},{"id":"GO:0007566","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0032967","count":3},{"id":"GO:0042730","count":3}]},{"hash":"1292702751999081955","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0061641","count":2}]},{"hash":"1480451867308476123","title":"Neuroimmune Development Signaling","description":"This cluster shows a mix of immune-related terms (innate immune response, interferon-alpha response) and nervous system development with GPCR signaling regulation and protein secretion, suggesting a shared role in neuroimmune communication during development and tissue identity maintenance. Some peripheral terms (stress responses, hair-cycle timing) are less directly connected but do not override the core theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050714","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0008277","count":2},{"id":"GO:1903070","count":2},{"id":"GO:0048496","count":2}]},{"hash":"636314474070795644","title":"Unknown","description":"The terms point to diverse processes: transcription regulation, growth, signaling, ECM remodeling, development, metabolism, and defense, with no single dominant function tying the cluster together. Therefore an Unknown label is most appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0045725","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2253665607842596597","title":"Heat-responsive signaling and adipocyte differentiation","description":"This cluster centers on terms related to responding to heat and adipocyte biology (fat cell differentiation), along with lipid metabolism and general cell signaling/migration. While some terms are obsolete, the combination suggests a theme of stress-induced signaling in adipocytes, with links to lipid catabolism and growth/migration processes, rather than a single tightly defined pathway. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0045444","count":6},{"id":"GO:0035508","count":6},{"id":"GO:0016477","count":6}]},{"hash":"360280463590803632","title":"Neural development and synaptic organization","description":"The terms point to nervous system formation and synaptic structure/function (retina development, neuroblast differentiation, synaptic vesicle clustering, terminal button organization, retrograde signaling), with transcription-related terms supporting regulatory roles; a couple of non-neural terms exist but do not override the dominant neural theme.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0060041","count":8},{"id":"GO:0002087","count":6},{"id":"GO:0002076","count":6},{"id":"GO:0006351","count":6}]},{"hash":"725441624734645927","title":"Vertebrate Embryonic Development Genes","description":"The proteins are enriched for GO terms spanning development of multiple vertebrate organs and tissues (midbrain, odontogenesis, male gonad, pituitary, uterus, hindlimb morphogenesis, inner ear, palate, ureteric bud). This points to a shared role in embryonic development and organogenesis rather than a single pathway. The presence of negative regulation of transcription by RNA polymerase II suggests involvement in controlling gene expression during development. Despite no reported edges, the common theme is multicellular organogenesis and developmental regulation, justifying this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0042475","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0021983","count":5}]},{"hash":"2211872082167389844","title":"Embryonic organogenesis and morphogenesis","description":"In this cluster, the dominant GO terms describe development across multiple organs and tissues during embryogenesis (inner ear, pituitary, palate, uterus, neural crest, tooth, midbrain, hindlimb, ureteric bud). The common theme is broad embryonic organogenesis and morphogenesis, with transcriptional regulation appearing as a general developmental control mechanism. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0060065","count":4}]},{"hash":"539506170718009684","title":"Spliceosome-Dependent mRNA Processing","description":"This cluster is dominated by GO terms focused on spliceosome-guided mRNA splicing, including regulation of (alternative) splicing, splice site recognition, and negative regulation of splicing. Additional terms relate to mRNA stability under stress and translation control, indicating the group centers on post-transcriptional RNA processing with links to translational regulation. Overall, the language points to a cohesive theme of RNA splicing and processing with connected layers of gene expression control.","confidence":"High","size":17,"edges":105,"triangles":364,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0048025","count":6},{"id":"GO:0010610","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0075522","count":4}]},{"hash":"620989768182312018","title":"Extrinsic apoptosis and inflammatory cytokine regulation","description":"The top GO terms point to activation and regulation of apoptosis (extrinsic pathway and apoptotic process) together with upregulation of inflammatory cytokines such as IL-6 and GM-CSF, suggesting a functional theme centered on programmed cell death linked to inflammatory signaling. While other terms (vitamin A response, gene expression regulation, phospholipid homeostasis, uterus development) are broader or less directly connected, the strongest shared signal in this cluster is components involved in apoptosis and cytokine regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097192","count":5},{"id":"GO:0048672","count":5},{"id":"GO:0055091","count":5},{"id":"GO:0032725","count":5},{"id":"GO:0010628","count":5}]},{"hash":"1550700053640077423","title":"Cell adhesion and bone morphogenesis","description":"Proteins in this cluster are enriched for heterophilic and integrin-mediated cell adhesion, cell-matrix adhesion, and various developmental processes, including spinal cord development, palatal morphogenesis, osteoblast differentiation, and bone trabecula formation, with associated ECM remodeling (hyaluronan biosynthesis) and inflammatory signaling. This points to a cohesive role in tissue adhesion during development and bone formation.","confidence":"High","size":17,"edges":23,"triangles":6,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0007275","count":14},{"id":"GO:0007160","count":12},{"id":"GO:0021517","count":12},{"id":"GO:1990134","count":12}]},{"hash":"1252759951687385222","title":"Germline Chromatin Silencing and Spermatogenesis","description":"This cluster centers on chromatin-related processes in the germline, including heterochromatin formation and sperm DNA condensation, with several terms pointing to spermatogenesis and male gonad development. The strongest, recurring GO terms are about chromatin silencing (e.g., heterochromatin formation at rDNA and silent mating-type cassettes) and germline development, supported by specific sperm-related terms. While some terms are broader (transcription regulation, plasmid partitioning, defense), the dominant theme ties chromatin regulation to germline/spermatogenic functions, justifying a label around germline chromatin remodeling during spermatogenesis.","confidence":"Medium","size":17,"edges":46,"triangles":36,"max_degree":11,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0051290","count":10},{"id":"GO:0007283","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0030466","count":6}]},{"hash":"2189407556322555670","title":"Organogenesis and Endocytic Trafficking","description":"This cluster is dominated by developmental processes across multiple organs (thymus, placenta, lens, CNS neurons) and includes cell migration, alongside a strong signal for caveolin-mediated endocytosis, suggesting a coherent theme of organ/tissue development coupled with membrane trafficking. A few obsolete terms and a stress-response term are present but do not override the main developmental-endocytic pattern.","confidence":"High","size":17,"edges":79,"triangles":158,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071276","count":17},{"id":"GO:0048538","count":17},{"id":"GO:0000187","count":17},{"id":"GO:0001890","count":17},{"id":"GO:0072584","count":16}]},{"hash":"1593334904223371332","title":"Embryonic development and cell adhesion signaling","description":"The cluster is dominated by GO terms tied to broad developmental processes across multiple tissues (nervous system development, synapse assembly, endocardial cushion formation, mesenchymal proliferation, ossification, nephron differentiation) and adhesion (homophilic/heterophilic). This suggests a cohesive theme of embryonic morphogenesis guided by cell adhesion and growth signaling, rather than a single tissue-specific function, with IGF receptor pathway regulation supporting developmental growth.","confidence":"High","size":17,"edges":7,"triangles":0,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007399","count":11},{"id":"GO:0043931","count":11},{"id":"GO:0007157","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0007156","count":9}]},{"hash":"1004541487396176540","title":"B cell-mediated adaptive immune signaling","description":"The top GO terms point largely to immune functions, especially adaptive immunity and B cell signaling (adaptive immune response, innate immune response, B cell receptor signaling, IL-2 production). Although a couple of terms (e.g., vocalization behavior, heart development) seem unrelated and may reflect annotation noise, the dominant theme is immune activation and B cell\u2013related signaling. This supports labeling the cluster as related to adaptive immunity with a focus on B cell signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0071625","count":3}]},{"hash":"1367428286879447510","title":"RNA processing and transcription regulation","description":"This cluster centers on RNA metabolism and gene expression control, with GO terms for transcription (DNA-templated transcription, transcription termination regulation), RNA processing (pre-miRNA processing, miRNA catabolic process), and RNA maturation (SSU rRNA maturation) alongside translation. Together these terms suggest a functional group involved in coordinating transcription, RNA maturation/stability, and protein synthesis. Some terms point to broader regulatory roles (e.g., osmotic-stress\u2013related apoptotic signaling), but the prevailing theme is RNA processing and transcription regulation.","confidence":"Medium","size":17,"edges":119,"triangles":482,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0031564","count":5},{"id":"GO:0006351","count":5},{"id":"GO:1902219","count":4},{"id":"GO:0060567","count":4}]},{"hash":"1772210441753164520","title":"Ubiquitin regulation and deubiquitination","description":"The top GO terms cluster around ubiquitination control: negative regulation of protein ubiquitination, ubiquitin-dependent protein catabolic process, and ubiquitin recycling, plus deubiquitination with K63- and K29-linked chains. These indicate a core theme of ubiquitin homeostasis and deubiquitinating activity, with supporting links to transcription and GPCR signaling that are commonly affected by ubiquitination. Thus, a focused label is appropriate. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031397","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0070536","count":3},{"id":"GO:0007283","count":3}]},{"hash":"1148207900778566567","title":"Epithelial Barrier and Inflammatory Signaling","description":"These proteins cluster around epithelial barrier functions such as bicellular tight junction assembly and epidermis development, with supportive signals for immune and survival pathways (NF-kappaB signaling, LPS-mediated signaling, autophagy, PI3K/AKT) and hints of cell proliferation and angiogenesis. The common theme suggests coordinated epithelial barrier maintenance coupled with inflammatory and growth signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":4},{"id":"GO:0010508","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0043066","count":3}]},{"hash":"572494004519169876","title":"Endosome Transport and Vesicle Trafficking","description":"The top GO terms cluster around endosomal transport (early endosome to Golgi, early endosome to late endosome, endosome to lysosome) and cytoplasm-to-vacuole targeting, pointing to vesicle trafficking and endosomal maturation as the core theme. Filopodium assembly and developmental terms appear as broader context or related processes, but the primary signal is endosomal/vesicular transport.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050863","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1186908659055268207","title":"Developmental signaling and tissue remodeling","description":"This cluster centers on developmental processes (cartilage condensation, kidney development) plus signaling pathways (ERK1/2 cascade) and adhesion/remodeling (cell-matrix adhesion, CAM production, angiogenesis). Immune terms like lectin pathway complement are present but the overarching theme appears to be signaling coordinating development and tissue remodeling rather than a single immune or neural function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0051968","count":8},{"id":"GO:0071226","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0045766","count":7}]},{"hash":"973688742414473618","title":"Synaptic plasticity and presynaptic organization","description":"The top GO terms point to synaptic function and plasticity\u2014long-term potentiation, synapse organization, and presynaptic assembly regulation\u2014and processes like receptor recycling. Together these suggest the proteins contribute to modulating synaptic strength and presynaptic structure.","confidence":"High","size":17,"edges":17,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001921","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0032769","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0043154","count":3}]},{"hash":"617442890407336276","title":"Immune Activation and Lymphocyte Signaling","description":"The cluster is dominated by GO terms related to innate and adaptive immune responses, IL-2 production, and lymphocyte signaling (B cell receptor signaling, T cell costimulation). These suggest the proteins co-localize in immune activation pathways. A few terms (hair follicle morphogenesis, synaptic plasticity, social behavior) are less clearly linked and may reflect broader annotations or pleiotropy, but the core signal is immune activation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0002250","count":5},{"id":"GO:1900042","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0031069","count":3}]},{"hash":"1464174013769215701","title":"RNA processing and post-transcriptional regulation","description":"The top GO terms cluster around mRNA fate after transcription: stress-related regulation of mRNA stability, spliceosome-mediated splicing, mRNA export, and translational control via miRNA and regulatory ncRNAs, including IRES-dependent viral translation. This indicates a cohesive theme of post-transcriptional regulation and RNA silencing rather than transcriptional control, hence a concise label focusing on RNA processing and silencing.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0031047","count":4},{"id":"GO:0006376","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0000381","count":3}]},{"hash":"1833678544158128974","title":"Transcription Regulation & ER Folding","description":"The cluster\u2019s top GO terms are dominated by DNA-templated transcription and regulation of transcription (including negative regulation by RNA polymerase II), indicating a core transcriptional regulatory function. The inclusion of protein folding in the endoplasmic reticulum suggests a connection to ER stress or protein quality control that can influence transcriptional programs. Additional terms related to tissue development (hair follicle morphogenesis) and hepatocyte apoptosis hint at transcription-driven regulation of cell fate and stress responses. Overall, the shared theme appears to be transcription regulation with an ER folding/quality-control context.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0034975","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0031069","count":2},{"id":"GO:0097284","count":2}]},{"hash":"1116211982916449558","title":"Fatty acid metabolism and adipogenesis","description":"This cluster shows enrichment for processes related to fatty acids and lipid synthesis, such as unsaturated fatty acid biosynthesis and response to fatty acids, plus white fat cell differentiation, pointing to lipid metabolism and adipogenic potential as the central theme. Some GO terms are obsolete or insect-specific (e.g., tarsal gland development), but the lipid-related terms dominate, guiding the overall interpretation toward fatty acid metabolism and adipogenesis.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":2},{"id":"GO:1903699","count":1},{"id":"GO:0010873","count":1},{"id":"GO:0033561","count":1},{"id":"GO:0044130","count":1}]},{"hash":"2027129229876458223","title":"Growth factor signaling and calcium mobilization","description":"These proteins appear to participate broadly in signaling pathway regulation, including positive regulation of MAPK/ERK cascades and Wnt signaling, and they also relate to calcium release into the cytosol. They show responses to several growth factor stimuli (PDGF, insulin, M-CSF) and cell-cell signaling, with a side note of neutrophil chemotaxis, suggesting an immune-related signaling theme. Taken together, the cluster centers on signaling, growth factor responses, and calcium dynamics rather than a single enzymatic function.","confidence":"High","size":17,"edges":13,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0030593","count":5},{"id":"GO:0043552","count":5}]},{"hash":"1444642244687905001","title":"Mitochondrial translation and import","description":"The top GO terms center on mitochondrial translation (general and specific stages) and protein import into the mitochondrial matrix, plus assembly of the mitochondrial respiratory chain complex III, pointing to a cohesive function in mitochondrial gene expression and protein targeting. A single term about menaquinone biosynthesis appears incidental to the main mitochondrial theme. ","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0034551","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0009234","count":2}]},{"hash":"2096475694899758349","title":"Transmembrane Transporters (Ions and Small Molecules)","description":"Top GO terms indicate transmembrane transport for a variety of substrates (potassium, sodium, phosphate, nitrite, arabinose, vitamin, xenobiotics, 4-hydroxyphenylacetate) and a neurotransmitter loading process, pointing to a cohesive set of membrane transporter proteins handling ion and metabolite movement, including vesicular transport in neurons. This supports a label of Transmembrane Transporters.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":11},{"id":"GO:0006855","count":11},{"id":"GO:0071805","count":10},{"id":"GO:0035435","count":9},{"id":"GO:1900754","count":9}]},{"hash":"901555462950802620","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The dominant GO terms are ubiquitin-dependent protein catabolic processes, including protein polyubiquitination and SCF-dependent proteasomal degradation, pointing to involvement in tagging and breaking down proteins via the ubiquitin-proteasome system. Other terms like glycoprotein catabolism and microtubule polymerization suggest broader cellular remodeling, but the central theme is proteolysis through ubiquitination. Confidence in this label is High.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:1903378","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0021678","count":7},{"id":"GO:0031146","count":7}]},{"hash":"1695733095936022724","title":"Dopaminergic signaling and cocaine response","description":"This cluster shows strong enrichment for dopaminergic synaptic transmission and behavioral response to cocaine, indicating a neuronal reward-pathway module. The presence of ERK/MAPK signaling and GTPase regulation supports broader neuronal signal transduction, while visual perception/learning terms may reflect associated sensory processing in the brain. Overall, the dominant dopamine-related and cocaine-response terms justify this label.","confidence":"High","size":17,"edges":121,"triangles":476,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0008542","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0048148","count":10}]},{"hash":"1217638985367855206","title":"Vesicle trafficking and mitosis","description":"The strongest signals in this cluster are endomembrane transport processes (ER-to-Golgi and retrograde Golgi-ER transport, endocytosis, vacuolar targeting, apical localization) together with mitotic cell cycle and cell division, indicating a group of proteins coordinating vesicle trafficking with cell-cycle progression. Brain development appears as an additional developmental context but does not override the core trafficking/mitosis theme.","confidence":"High","size":17,"edges":14,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0048312","count":4},{"id":"GO:0045176","count":4}]},{"hash":"1934008238535102982","title":"ECM remodeling with immune and developmental signaling","description":"This cluster is dominated by processes related to extracellular matrix remodeling, including collagen catabolic process and basement membrane disassembly, and includes decidualization and thyroid hormone\u2013related tissue remodeling. The presence of T cell\u2013mediated cytotoxicity suggests immune interactions, indicating the proteins may coordinate ECM remodeling with immune and developmental signaling. ","confidence":"Medium","size":17,"edges":102,"triangles":384,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":15},{"id":"GO:0001913","count":14},{"id":"GO:0030574","count":14},{"id":"GO:0097067","count":14},{"id":"GO:0046697","count":14}]},{"hash":"1627111939458420194","title":"Actin dynamics and nucleokinesis","description":"The top GO terms cluster around actin- and microfilament-mediated processes, including regulation of GTPase and Rho signaling, microspike assembly, and nucleokinesis along microfilaments, plus nuclear membrane anchoring. This points to coordinated cytoskeletal remodeling driving cell motility and nuclear movement, with some signaling cross-talk (e.g., SMAD regulation) that may modulate these processes. Therefore, the label Actin dynamics and nucleokinesis is representative of the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0031022","count":4},{"id":"GO:0090292","count":4}]},{"hash":"2009755842803308851","title":"Developmental morphogenesis and neural signaling","description":"The top GO terms point to development and morphogenesis across skin, brain, and eye, combined with adhesion and signaling pathways (Rho/GTPase, PKA) and neuronal channel organization, suggesting a cohesive module of developmental signaling and neural differentiation. The complement activation term appears less connected but does not override the overall developmental/neuronal theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0070208","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0006958","count":3},{"id":"GO:2000481","count":3}]},{"hash":"1065131713593965795","title":"Immune signaling and cell adhesion","description":"The top GO terms are dominated by immune-related processes (innate and adaptive immune responses, B cell receptor signaling, IL-2 production) and processes related to cell communication such as cell adhesion and synapse assembly. While there is a heart development term and a couple of obsolete terms, the majority points to proteins involved in immune activation and immune cell interactions, suggesting a cohesive theme of immune signaling and cell-cell communication.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0045087","count":5},{"id":"GO:1900042","count":5}]},{"hash":"1993887812933455638","title":"Cardiovascular and neural development signaling","description":"The top GO terms point to heart development, angiogenesis, blood pressure regulation, and cortical layer formation, with supportive signaling motifs from ERK cascades, GPCR signaling, and Rho-mediated pathways. This pattern suggests a cluster of proteins involved in developmental signaling that impacts both cardiovascular and neural development rather than a single metabolic process.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0008542","count":9},{"id":"GO:0007266","count":8},{"id":"GO:0022900","count":8}]},{"hash":"1249832765191752539","title":"Innate Immune Regulation and Cell Communication","description":"Most top GO terms center on negative regulation of immune cell activity (NK, macrophages, T cells) and innate immune response, with additional links to cell\u2013cell adhesion. This suggests a cluster of proteins involved in dampening immune responses and mediating intercellular signaling, with some ancillary links to adhesion and metabolic or cardiac-related terms that may reflect broader tissue-specific roles. ","confidence":"Medium","size":17,"edges":102,"triangles":316,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0002859","count":6},{"id":"GO:0043031","count":6},{"id":"GO:0043318","count":6},{"id":"GO:0086072","count":6},{"id":"GO:0007157","count":6}]},{"hash":"467592187166194770","title":"Cell adhesion and host-entry junction proteins","description":"This cluster is characterized by GO terms linked to cell-cell adhesion (heterophilic adhesion), junction assembly (paranodal and smooth septate junctions), and host\u2013cell interactions (symbiont entry, receptor-mediated virion attachment, and integrin signaling). While a few cardiac electrophysiology terms appear among the annotations, the dominant theme across the top terms is adhesion/junction biology and host-cell interaction, suggesting a grouping of proteins involved in cell junctions and entry processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0046718","count":4},{"id":"GO:2001046","count":4},{"id":"GO:0046813","count":4},{"id":"GO:0030913","count":4}]},{"hash":"1398321143444352373","title":"Unknown","description":"The top GO terms span neural learning (visual learning, operant conditioning) and broad signaling and physiological processes (serotonin receptor signaling via PLC, adenylate cyclase activation, IL-8 production, eosinophil chemotaxis, blood pressure regulation, astrocyte chemotaxis, smooth muscle differentiation, opsin signaling). This mix across nervous, immune, and vascular systems suggests no single cohesive function or pathway tying the proteins together, and there are no edges to reinforce a shared mechanism. Therefore, a specific label isn\u2019t justifiable; Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":17},{"id":"GO:0035106","count":17},{"id":"GO:0007190","count":17},{"id":"GO:2000484","count":17},{"id":"GO:0007208","count":17}]},{"hash":"2012786395139648465","title":"Neural Sensory Signaling and Drug Response","description":"The cluster is dominated by GO terms related to sensory perception (pain, vision), visual learning, and neural signaling pathways (ERK cascade), along with brain-specific regulatory terms and behavioral responses to drugs (morphine, cocaine). This pattern points to proteins involved in nervous system signaling, sensory processing, and drug-induced behaviors, with only a peripheral term on heart development. Overall, it represents neural-sensory signaling with drug-response functions.","confidence":"High","size":17,"edges":100,"triangles":273,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0008542","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0070374","count":15}]},{"hash":"2149959635488278159","title":"Neural GPCR Signaling and Metabolic Regulation","description":"The cluster is dominated by GO terms linked to GPCR signaling and adenylate cyclase activation (GO:0010579, GO:0007190), along with neural/process terms such as sensory perception of pain and visual learning, prostaglandin response, and blood pressure regulation. The presence of membrane potential regulation and thermogenesis terms, plus electron transport chain hints, suggests a broader coordination between neural signaling and cellular energy metabolism. Together, these points indicate a shared theme of GPCR-mediated neural signaling with associated metabolic and vascular regulation.","confidence":"Medium","size":17,"edges":13,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0071380","count":12}]},{"hash":"699701102173772344","title":"Neural Signaling and Visual Processing","description":"The terms cluster around neural signaling and vision-related functions: retina development, visual learning, and operant conditioning point to visual system processing and learning, while calcium release, PLC-activating serotonin signaling, and adenylate cyclase activation indicate common neuronal signal transduction pathways. Although there are a few peripheral terms (IL-8, blood pressure, proliferation), the dominant theme is neural signaling linked to vision and learning.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":16},{"id":"GO:0060041","count":15},{"id":"GO:0008283","count":15},{"id":"GO:0043547","count":15},{"id":"GO:0008542","count":14}]},{"hash":"1622276993016134471","title":"Astrocyte differentiation and calcium signaling","description":"Top terms cluster around astrocyte differentiation/activation, memory, and calcium signaling (GO:0048708, GO:0048143, GO:0007613, GO:0051281, GO:0007223). The calcium-related GO terms and Wnt-calcium pathway suggest neural/glial signaling context. Some terms like EMT and mammary gland involution are less specific and may reflect broader signaling or cross-talk, but the dominant pattern points to astrocyte-related differentiation tied to calcium signaling.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051281","count":10},{"id":"GO:2001015","count":9},{"id":"GO:0007223","count":9},{"id":"GO:0007613","count":8},{"id":"GO:0048708","count":8}]},{"hash":"613023691231986953","title":"MAPK-regulated cerebellar development","description":"The top GO terms emphasize negative regulation of the ERK/MAPK cascade and T cell receptor signaling, pointing to MAPK pathway regulation. Concurrent cerebellar development terms (cerebellar cortex formation, Bergmann glial differentiation) suggest a neural development context. Together, the cluster seems to reflect regulators of signaling pathways, particularly MAPK, in cerebellar development, with some broader signaling links (insulin signaling, immune signaling). ","confidence":"Medium","size":17,"edges":127,"triangles":559,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":16},{"id":"GO:0000200","count":16},{"id":"GO:0070373","count":16},{"id":"GO:2001275","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1471219977259538296","title":"Bacterial cell wall glycosylation and teichoic acid biosynthesis","description":"The top GO terms cluster around cell wall modification and glycosylation, notably O-linked protein glycosylation and teichoic acid biosynthesis, with cell wall organization also represented. These suggest a coherent theme of glycopolymer construction in Gram-positive bacteria, despite some unrelated terms present.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":3},{"id":"GO:0019350","count":3},{"id":"GO:0071555","count":3},{"id":"GO:1900087","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1832032634638189148","title":"Placental and reproductive development","description":"This cluster centers on placenta-related development (maternal placenta development, labyrinthine layer morphogenesis) and uterus development, with innate immune response and calcium signaling terms that commonly accompany placental biology. Some bone remodeling terms appear but do not dominate; overall the set points to placental/reproductive development with an immune context.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0016049","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0071847","count":2}]},{"hash":"1460880827704592293","title":"Growth Signaling and Metabolic Regulation","description":"This cluster centers on core growth and signaling processes (cell growth, multicellular growth, Wnt signaling, and regulation of phosphorylation) with metabolic regulation indicated by insulin secretion, plus mitochondria-related calcium handling and xenobiotic/stress responses. The terms point to a cohesive theme of growth control and signaling modulated by metabolic and stress cues, though a few outliers (RNA methylation, immune responses) are present.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0032024","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0036265","count":2}]},{"hash":"1037215974794032110","title":"DNA Repair and PARP Activity","description":"The top terms are dominated by DNA repair and single-strand break repair, with an additional PARP-related term (ATP generation from poly-ADP-ribose), indicating a PARP-mediated DNA damage response. Other terms (secretion, morphogenesis, bone resorption) are less coherent with this theme, so the central function appears to be DNA repair and PARP-associated signaling/metabolism.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0000012","count":2},{"id":"GO:0010043","count":1},{"id":"GO:0002009","count":1}]},{"hash":"2111285049128575309","title":"DNA replication and repair with stress signaling","description":"This cluster is dominated by GO terms for DNA replication, DNA repair, DNA-templated transcription, and apoptotic processes, indicating a core role in genomic maintenance and cellular stress responses. While a handful of terms touch on innate immunity, endocytosis, and development, the strongest signals center on DNA metabolism and cell fate decisions, justifying a label focused on genomic maintenance and stress signaling.","confidence":"Medium","size":17,"edges":10,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006281","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0045087","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0006915","count":17}]},{"hash":"856439002756917616","title":"Developmental Morphogenesis and Patterning","description":"The top GO terms converge on tissue and organ formation across multiple systems\u2014left/right patterning, placenta and endocrine development, cartilage and palate morphogenesis, pancreatic cell development, trophoblast and EMT-related heart development, and hair follicle morphogenesis. This points to a broad embryonic developmental program rather than a single tissue, so the label reflects general developmental morphogenesis and patterning.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0060536","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0035270","count":14}]},{"hash":"922856722760128467","title":"Innate Immune and Neuroimmune Signaling","description":"The cluster is dominated by GO terms related to innate and inflammatory immune responses, dendritic cell cytokine production, interferon production, and regulation of various signaling pathways (NF-kappaB, chemokine signaling, and kinase activity). This suggests a cohesive theme around immune signal initiation and regulation. The inclusion of myelination and dopamine receptor signaling hints at CNS-related or neuroimmune interactions, indicating possible cross-talk between immune responses and neural functions. Overall, the proteins seem to function together in immune signaling with potential CNS regulatory roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0042346","count":2},{"id":"GO:0070100","count":1},{"id":"GO:0006469","count":1}]},{"hash":"1948385988678038903","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070478","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0097272","count":1},{"id":"GO:0055081","count":1}]},{"hash":"1383319064715373628","title":"Diverse tissue-specific cell differentiation","description":"The top GO terms point to morphogenesis and cell fate commitment across different tissues (muscle, glial/astrocyte, adrenal chromaffin, inner ear, pancreatic PP cells, stomatal development, umbilical cord). This suggests the cluster's proteins participate in general developmental differentiation processes affecting multiple tissue lineages rather than a single pathway. The terms span various organisms, supporting a broad differentiation theme rather than a specific function.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060415","count":15},{"id":"GO:2000820","count":15},{"id":"GO:0003329","count":15},{"id":"GO:2000763","count":15},{"id":"GO:0021781","count":15}]},{"hash":"1445586339281892681","title":"Developmental Cell Fate Specification","description":"The top GO terms cluster around cell fate specification and development across multiple tissues (brain interneurons, spinal cord neurons and oligodendrocytes, pancreas, bronchioles, muscle), indicating a shared theme of developmental differentiation programs rather than a single tissue-specific function.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0021892","count":12},{"id":"GO:0021520","count":12},{"id":"GO:0021530","count":12},{"id":"GO:0031018","count":12}]},{"hash":"1281769774655020513","title":"Regulation of cell proliferation and transcription","description":"These proteins jointly feature terms that promote proliferation in stem cells, fibroblasts, and endothelial cells, along with DNA-templated transcription and lysine deacetylation, and signaling/stress response terms (epinephrine response, PKA activity, ER stress\u2013related apoptosis). This suggests a cohesive theme of growth signaling and transcriptional regulation under stress.","confidence":"Medium","size":16,"edges":112,"triangles":463,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000648","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0006351","count":6},{"id":"GO:2000481","count":5},{"id":"GO:0048146","count":5}]},{"hash":"2290751545293158122","title":"Embryonic Organ Morphogenesis","description":"The top GO terms point to morphogenesis and development across several organs (heart, hindlimb, eye, placenta, prostate, habenula, outflow tract), indicating a coherent theme of embryonic organ formation and regulatory processes.","confidence":"High","size":16,"edges":14,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0035116","count":6}]},{"hash":"335871768943389410","title":"Embryonic organogenesis and differentiation","description":"The terms point mainly to developmental processes such as heart development, ureter development, in utero embryonic development, intramembranous ossification, and fat cell differentiation, indicating a theme of embryonic tissue formation and differentiation. Other terms (GTPase activity regulation, DNA replication initiation, innate immune response, defense against virus) may reflect broader regulatory or proliferative roles connected to development, but the core signal is embryonic organogenesis.","confidence":"Medium","size":16,"edges":27,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0072189","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0003139","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1862016695614204367","title":"Developmental ECM Remodeling and Coagulation","description":"The GO terms cluster around tissue development (midbrain, pancreas, digestive system, biomineral tissue) and extracellular matrix remodeling (collagen catabolic process), with immune/coagulation aspects (complement activation, blood coagulation). This suggests a theme of developmental processes tied to ECM remodeling and coagulation pathways, even though a single precise function is not singularly dominant.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":10},{"id":"GO:0030194","count":9},{"id":"GO:0030574","count":9},{"id":"GO:0031214","count":9}]},{"hash":"1685659032478992751","title":"ERAD/Ubiquitin-Proteasome Quality Control","description":"This cluster is dominated by GO terms for ubiquitin-dependent ERAD, protein deubiquitination, and unfolded protein response in the ER, indicating involvement in endoplasmic reticulum\u2013associated protein quality control and ubiquitin signaling. Additional terms related to calcium channel regulation and stress responses suggest links to ER calcium handling and broader cellular stress signaling, but the core theme remains ubiquitin-mediated quality control. ","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0016579","count":7},{"id":"GO:1904378","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0021888","count":4}]},{"hash":"664152959457890401","title":"Neural development and signaling","description":"The top GO terms are strongly oriented toward nervous system development (brain development, nervous system development, axon guidance) and key signaling pathways (ERK/MAPK cascade, Hedgehog via Smoothened, PI3K activity, and T cell receptor signaling). This points to a cluster of proteins involved in neural development and the signaling processes that guide neuronal growth and differentiation, with bone and reproductive development terms appearing as supplementary developmental roles. Confidence: High","confidence":"","size":16,"edges":56,"triangles":57,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0050852","count":6}]},{"hash":"125041056423402391","title":"Endothelial and adipose oxidative stress response","description":"This cluster centers on oxidative stress and redox-related processes, including cellular oxidant detoxification, redox homeostasis, and responses to oxidative stress that can trigger intrinsic apoptotic signaling and vasodilatory/endothelial development functions. The presence of triglyceride metabolism and fat cell differentiation alongside endothelial terms suggests a link between redox biology, vascular function, and adipose lipid metabolism. Thus the label captures both the redox theme and the vascular/adipose tissue context.","confidence":"Medium","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0006641","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0030416","count":5}]},{"hash":"1941055470741664344","title":"Clathrin-dependent endocytosis and vesicle trafficking","description":"The top GO terms converge on clathrin-coated vesicle formation, clathrin-mediated endocytosis, and vesicle sorting (multivesicular body pathway), with supporting signals from actin patch involvement in trafficking. Some terms like pregnancy or amyloid-beta formation may be less central or species-specific, but overall the dominant theme is clathrin-driven endocytosis and vesicle sorting. ","confidence":"High","size":16,"edges":30,"triangles":16,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007565","count":6},{"id":"GO:0006919","count":5},{"id":"GO:1902004","count":5},{"id":"GO:0055123","count":5},{"id":"GO:0048261","count":5}]},{"hash":"283146722814063220","title":"Unknown","description":"The cluster shows a mix of terms spanning cytoskeletal remodeling (ruffle assembly), extrinsic apoptotic signaling, cell migration, and various post-translational regulatory processes, with no single function consistently dominating the set and no interactions linking the proteins. This makes a cohesive, interpretable label unlikely.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097178","count":3},{"id":"GO:0042993","count":3},{"id":"GO:0061084","count":2},{"id":"GO:1903061","count":2},{"id":"GO:0097192","count":2}]},{"hash":"245959923264761403","title":"Neural sensory processing and learning signaling","description":"This cluster\u2019s GO terms converge on neural function: sensory detection of temperature and pain, thermogenesis related to metabolic heat, regulation of membrane potential, and GPCR signaling pathways (adenylate cyclase activation; PLC via serotonin receptors), plus learning-related terms (visual learning, operant conditioning). The presence of autonomic regulation (blood pressure) further supports neural control, while cytokine-related terms may reflect neuroimmune interactions. Overall, the dominant theme is neuronal signaling and sensory processing. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0042391","count":10},{"id":"GO:0008542","count":9}]},{"hash":"100837250265985025","title":"Multicellular development and organogenesis","description":"This cluster centers on organismal development across multiple tissues (brain, forebrain, retina, inner ear, gonad) and overall multicellular development, as shown by terms like brain development, retina development, inner ear morphogenesis, and single fertilization. A small set of terms relates to ribosomal/mitochondrial translation, which likely reflects housekeeping processes rather than a core functional theme of the cluster. Overall, the dominant signal is developmental processes, hence this label. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1922380999987115505","title":"Transcription and Translation Regulation","description":"The top GO terms cluster around transcription and translation processes (DNA-templated transcription, transcription termination, translation, negative regulation of translation, and ribosome assembly), suggesting these proteins collectively participate in gene expression control and RNA metabolism. Some terms like nitrogen fixation and iron-sulfur cluster assembly point to broader metabolic roles but can be linked to regulatory networks affecting transcription/translation in various contexts. Overall, the central theme is regulation of gene expression at both transcriptional and translational levels.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0017148","count":3},{"id":"GO:0060702","count":2},{"id":"GO:0046677","count":2}]},{"hash":"2272006137518398507","title":"Innate and Adaptive Immune Signaling with LPS Response","description":"Top GO terms cluster around innate and adaptive immune signaling, including neutrophil homeostasis, innate immune response, and B/T cell receptor signaling, as well as cellular responses to LPS and lipoteichoic acid. The dominant theme is immune cell signaling and bacterial recognition, with a few non-immune terms appearing less prominently.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001780","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0071222","count":2}]},{"hash":"145498491782636580","title":"Unknown","description":"The top GO terms are diverse and span immune signaling (T cell proliferation, IL-1\u03b2 production, IgA isotype switching), organ development (atrial septum morphogenesis, cornea development), and epigenetic regulation (histone and DNA methylation) with no connecting functional theme or interaction (no edges). This dispersion prevents a cohesive name beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042098","count":2},{"id":"GO:0010452","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0003290","count":2},{"id":"GO:0003289","count":2}]},{"hash":"2199030414917792800","title":"Adaptive and Innate Immune Signaling","description":"These proteins cluster around immune activation and regulation, with GO terms for T cell costimulation, IL-2 production, CD8+ T cell regulation, B cell receptor signaling, complement activation, phagocytosis recognition, and innate immune response, suggesting involvement in coordinated adaptive and innate immune signaling.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0046814","count":6},{"id":"GO:1900042","count":6},{"id":"GO:1905404","count":6}]},{"hash":"2200989792104421468","title":"Neuronal spine morphogenesis and actin dynamics","description":"This cluster centers on actin-driven remodeling in neurons, with terms for filopodium and podosome assembly, dendritic spine development, and GABAergic synaptic transmission, indicating actin dynamics underpinning spine formation and synapse function. Additional terms on substrate adhesion, mechanical response, ubiquitination, and intracellular transport suggest regulatory and trafficking roles that support these neuronal structural changes. Confidence: High","confidence":"","size":16,"edges":7,"triangles":0,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0046847","count":4},{"id":"GO:0051932","count":4},{"id":"GO:0071803","count":4},{"id":"GO:1900026","count":4}]},{"hash":"1696221401174944619","title":"Innate Immune Signaling and Apoptosis Regulation","description":"The cluster is strongly enriched for innate immune and inflammatory processes (innate immune response, inflammatory response, LPS response) and cytokine production (IL-5, IL-8), along with regulation of NF-kappaB signaling and apoptosis, including ubiquitination. This combination points to a cohesive theme of immune signaling coupled with controlled cell death, typical of inflammatory and host-defense responses.","confidence":"High","size":16,"edges":12,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0070373","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5}]},{"hash":"958212060490752138","title":"Neurovascular morphogenesis and BMP signaling","description":"The cluster prominently features terms tied to developmental signaling and morphogenesis across neural and vascular contexts, including positive regulation of BMP signaling, axon guidance, and morphogenesis of the glomerulus and endothelium, as well as trigeminal nerve development. These point to coordinated neurovascular development with BMP-related signaling as a common thread; the immune-related terms may reflect pleiotropic roles or cross-talk but do not override the main developmental theme. ","confidence":"Medium","size":16,"edges":52,"triangles":48,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":11},{"id":"GO:0021740","count":11},{"id":"GO:0045425","count":11},{"id":"GO:0002859","count":11},{"id":"GO:0042523","count":11}]},{"hash":"2039098521129781123","title":"Membrane Transporters for Sugars and Xenobiotics","description":"The GO terms are dominated by transmembrane transport activities for a variety of substrates, including vitamins, xenobiotics, sugars (glucose, xylose), phosphate, and related compounds. This suggests a cluster of membrane transporter proteins with broad substrate specificity, mediating uptake or efflux of nutrients and xenobiotics. The insulin-stimulated glucose import term further supports a sugar-transport role, while a few obsolete terms reflect historical annotations rather than a different function.","confidence":"High","size":16,"edges":68,"triangles":129,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":15},{"id":"GO:0006855","count":15},{"id":"GO:0042891","count":12},{"id":"GO:0035435","count":10},{"id":"GO:1904659","count":10}]},{"hash":"773624369119425863","title":"Immune cell adhesion and signaling","description":"The cluster shows a pattern of immune-regulatory GO terms (negative regulation of NK cell cytotoxicity, macrophage activation, T cell degranulation; positive regulation of T cell proliferation) coupled with cell\u2013cell adhesion and synapse-related terms (regulation of actin cytoskeleton by cell\u2013cell adhesion, synapse assembly, heterophilic adhesion). This suggests a shared theme of immune cell contact-dependent signaling and immune synapse formation, with some broader adhesion-related processes included. ","confidence":"Medium","size":16,"edges":8,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002859","count":8},{"id":"GO:0043031","count":8},{"id":"GO:0090138","count":8},{"id":"GO:0043318","count":8},{"id":"GO:0051963","count":8}]},{"hash":"1182027967870458141","title":"Endothelial Oxidative Stress and NO Signaling","description":"Top GO terms highlight oxidative/reductive processes, cellular oxidant detoxification, xenobiotic response, and nitric oxide biosynthesis, aligning with endothelial cell redox balance and NO-mediated signaling. Additional terms for endothelial morphogenesis and cell adhesion suggest a vascular development context, while the DNA-templated transcription term hints at coordinated gene regulation. Taken together, the cluster likely reflects proteins involved in oxidative stress management and NO signaling in endothelial cells, with some links to vascular development.","confidence":"Medium","size":16,"edges":5,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0045429","count":3},{"id":"GO:0009636","count":3}]},{"hash":"1080633285808206334","title":"Neural development and synaptic signaling","description":"The cluster\u2019s top GO terms point strongly to nervous system development and function: Schwann cell development, axonogenesis, visual perception, and excitatory postsynaptic potential. These suggest a cohesive theme around neural differentiation, axon growth, and synaptic activity. The presence of cell-cycle terms (G2/M transition, mitotic cell cycle) and apoptosis regulation may reflect broader developmental control and signaling processes linked to proliferation and differentiation. The abscisic acid-activated signaling pathway term appears out of place (plant signaling) and likely reflects cross-annotation rather than a shared function, but it doesn\u2019t override the dominant neural emphasis.","confidence":"Medium","size":16,"edges":114,"triangles":484,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0007409","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0000086","count":12}]},{"hash":"372582671040152988","title":"Mitochondrial energy metabolism and translation","description":"This cluster centers on energy production and protein synthesis, with GO terms for translation, mitochondrial electron transport (NADH to ubiquinone), and ATP synthesis, plus general transport. Occasional development terms may reflect broader tissue annotations but do not define the core theme. Overall, the dominant link is cellular energy generation tied to translation.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0055114","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0019684","count":2},{"id":"GO:0006120","count":1}]},{"hash":"1405373368324642702","title":"Neuro-immune adhesion and synapse signaling","description":"The cluster is enriched for GO terms centered on heterophilic cell-cell adhesion and synapse organization, nerve impulse transmission, and cell adhesion in cardiac conduction, alongside immune-related terms such as innate immune response, regulation of NK and T cell activity, and complement activation. This pattern suggests proteins involved in cell\u2011cell communication and signaling at neural interfaces that also mediate immune modulation, with a neural development component highlighted by FGFR signaling in brain development. Therefore, a name emphasizing neuro-immune adhesion and synaptic signaling fits best.","confidence":"Medium","size":16,"edges":111,"triangles":441,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0002859","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0043031","count":9},{"id":"GO:0019226","count":9}]},{"hash":"534972548089328698","title":"Neuronal vesicle trafficking and endosome regulation","description":"Among the top GO terms are brain development, regulation of synaptic vesicle exocytosis, regulation of endosome transport, multivesicular body assembly/sorting, and autophagy-related processes, alongside apoptotic process and cell cycle terms. This pattern suggests a cohesive theme of intracellular membrane trafficking and vesicle sorting in neurons, coordinating synaptic function and endosomal/autophagic pathways during brain development. Confidence: Medium","confidence":"","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0007420","count":3},{"id":"GO:2000300","count":3},{"id":"GO:2000641","count":2},{"id":"GO:0010458","count":2}]},{"hash":"344272657150391128","title":"Developmental Angiogenesis Signaling","description":"This cluster is dominated by GO terms tied to angiogenesis, heart and nervous system development, and key signaling pathways (AKT, MAPK/ERK). Together, they point to proteins involved in developmental signaling that promotes vascular and organ (including heart) formation, with some immune-related terms appearing as ancillary functions. ","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032148","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1463020542657547451","title":"Innate immune signaling and neutrophil chemotaxis","description":"The terms cluster around innate immune sensing of fungal origin and neutrophil recruitment, with core signaling events (ERK/MAPK cascade, calcium mobilization, PI3K activity, and STAT phosphorylation) and broader growth factor responses, suggesting an integrated immune signaling module guiding neutrophil chemotaxis.","confidence":"Medium","size":16,"edges":114,"triangles":480,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":14},{"id":"GO:0070374","count":11},{"id":"GO:0051281","count":11},{"id":"GO:0030593","count":11},{"id":"GO:0043552","count":11}]},{"hash":"666465831598396131","title":"Embryonic patterning and organ morphogenesis","description":"This cluster centers on developmental processes, with terms concerning left-right patterning, tissue and organ morphogenesis (cartilage, endocardial cushions, placenta), and various aspects of endocrine development. Transcriptional regulation terms also hint at the gene-expression programs driving differentiation during embryogenesis, supporting a cohesive theme of developmental patterning and lineage specification.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":11},{"id":"GO:0060972","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0060806","count":11},{"id":"GO:0060707","count":11}]},{"hash":"737416852928571924","title":"Immune cell signaling and actin dynamics","description":"The top GO terms point to immune development and signaling (NK T cell differentiation, B cell maturation, IL-4/IL-7 responses, hemopoiesis) together with pathways controlling cytoskeletal remodeling (Ras/Rho GTPase signaling and lamellipodium assembly). This suggests a coherent theme of immune cell signaling coupled with actin-driven mobility and morphology, especially in responses to pathogens (fungal origin). ","confidence":"High","size":16,"edges":16,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":9},{"id":"GO:0001865","count":7},{"id":"GO:0007264","count":7},{"id":"GO:0046580","count":7},{"id":"GO:0035023","count":7}]},{"hash":"1859948819388476574","title":"Gametogenesis and Fertilization","description":"This cluster is dominated by GO terms related to gamete production across sexes (oogenesis, spermatogenesis, male and female meiosis), fertilization, and germline development (germarium-derived oocyte fate, pole cell development), with an additional signal for germline transposon silencing. The cohesive theme is gametogenesis and germline maintenance, justifying a concise label that captures these processes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048477","count":7},{"id":"GO:0007140","count":5},{"id":"GO:0043046","count":5},{"id":"GO:0007283","count":5},{"id":"GO:0007143","count":4}]},{"hash":"456171794242651483","title":"Secondary Metabolite Biosynthesis & Catabolism","description":"This cluster centers on diverse biosynthetic processes for small molecules (phenylpropanoids, siderophores, menaquinone, nonribosomal peptides) and related catabolic pathways (malonate, phenylacetate), suggesting a common theme of secondary metabolite production and remodeling. Some terms (bioluminescence, seed germination regulation) appear peripheral, but the dominant signal is multiple biosynthetic and catabolic small-molecule pathways.","confidence":"Medium","size":16,"edges":105,"triangles":382,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009698","count":7},{"id":"GO:1902987","count":7},{"id":"GO:0008218","count":7},{"id":"GO:0090410","count":7},{"id":"GO:0019427","count":7}]},{"hash":"716074238757542349","title":"Golgi-localized regulators of signaling and mitosis","description":"This cluster is enriched for Golgi-related terms (Golgi ribbon formation and protein localization to Golgi apparatus), suggesting a group of Golgi-associated proteins. The presence of terms related to ERK and NF-kappaB signaling, T cell proliferation, and spindle assembly/checkpoint processes hints at broader regulatory roles linking Golgi function with cell signaling and mitosis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":2},{"id":"GO:0090051","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0000042","count":2}]},{"hash":"748827215120268103","title":"Developmental differentiation and cilium assembly","description":"The cluster\u2019s GO terms cluster around developmental processes across tissues (multicellular organism development, kidney and skeletal system development, neuron projection development, megakaryocyte development) and transcriptional/cytoskeletal regulation, with a notable presence of cilium assembly, suggesting a shared role in developmental differentiation and ciliogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0006348","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0006351","count":2}]},{"hash":"2231705034540559319","title":"Neural and Eye Development","description":"The top GO terms cluster around development of neural and ocular tissues: forebrain development, corticospinal tract morphogenesis, radial glial differentiation, and lens fiber cell development. This suggests a shared role in cellular differentiation and maturation of neural and eye structures, with supporting contributions from IGF signaling and Golgi-related transport. Some terms (keratinization, ossification) are outliers but likely reflect broader cellular processes in the set. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":3},{"id":"GO:0060019","count":3},{"id":"GO:0031424","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0000301","count":2}]},{"hash":"894973097034136183","title":"Neural signaling and behavioral drug response","description":"These terms cluster around neural information processing (pain perception, temperature response, learning, cocaine-related behavior) and common signaling pathways (adenylate cyclase-activating GPCR signaling, ERK cascade). A few terms point to cardiovascular regulation, which can be under neural control, but the dominant theme is neuronal signaling and stimulus-driven behavior, including drug response.","confidence":"Medium","size":16,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0008542","count":10},{"id":"GO:0007190","count":10}]},{"hash":"1642220531688930847","title":"Cardiovascular and Neural GPCR-cAMP Signaling","description":"The top GO terms point to GPCR pathways that activate adenylate cyclase and downstream ERK signaling, including dopamine receptor signaling and heart-related processes (blood pressure regulation, heart development). Neural functions such as pain perception and learning are also represented, suggesting a shared GPCR-cAMP mechanism operative in both cardiovascular and neural contexts (with energy-related terms like electron transport chain likely reflecting tissue demands). ","confidence":"High","size":16,"edges":9,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007190","count":11},{"id":"GO:0007507","count":10}]},{"hash":"1457652210695412992","title":"Unknown","description":"The top GO terms are highly diverse, spanning neural signaling (visual learning, operant conditioning, opsin signaling, adenylate cyclase activation), immune chemotaxis (IL-8, eosinophil, astrocyte chemotaxis), and vascular regulation, with no clear, single biological theme tying all 16 proteins together. There isn\u2019t a cohesive function that represents the cluster as a whole, so a precise label cannot be derived.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0007190","count":16},{"id":"GO:2000484","count":16},{"id":"GO:0007208","count":16}]},{"hash":"1644504550159818450","title":"Auditory and Vestibular Sensory Perception","description":"Most of the prominent terms describe hearing and balance (auditory receptor development, detection of mechanical stimulus for sound, vestibular reflex), indicating the cluster centers on auditory/vestibular sensory function. A few terms about ion transport or homeostasis appear only once and do not define the cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055069","count":1},{"id":"GO:0060117","count":1},{"id":"GO:0032460","count":1},{"id":"GO:1902041","count":1},{"id":"GO:1903169","count":1}]},{"hash":"426809818377550135","title":"Unknown","description":"The top GO terms span very diverse areas (microbial beta-ketoadipate metabolism, brain development and learning, vascular smooth muscle regulation, mast cell activation, and general DNA damage and hypoxia responses). There\u2019s no clear, shared function or pathway tying these proteins together, and the lack of edges/structure reinforces the absence of a cohesive functional theme. A single, representative label would be speculative, so Unknown is appropriate.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042952","count":5},{"id":"GO:0008284","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0008542","count":4},{"id":"GO:0048662","count":4}]},{"hash":"1595122899815877316","title":"Unknown","description":"The top GO terms span immune/stress responses (lipopolysaccharide response, apoptotic process), regulatory and signaling processes (ubiquitination, miRNA processing, cAMP, mRNA catabolic regulation), and diverse developmental pathways (myelination, skeletal muscle fiber development, fat cell differentiation) with no clear unifying function. The lack of shared pathway signals and the absence of edges suggest the proteins do not form a cohesive functional cluster. ","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0045019","count":2},{"id":"GO:1903799","count":2},{"id":"GO:0061014","count":2}]},{"hash":"626355263952326947","title":"RNA Processing and Translation Initiation Factors","description":"The GO terms emphasize mRNA processing, translation initiation (including preinitiation complex formation and IRES-driven initiation), and RNA polymerase III\u2013related transcription, pointing to a group of proteins involved in RNA maturation and the onset of translation. Some terms also touch on DNA repair and muscle differentiation, but the strongest shared theme is RNA metabolism linked to translation initiation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0075522","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006446","count":2}]},{"hash":"2192157666268054583","title":"Embryonic development and organogenesis","description":"The proteins are associated with GO terms spanning embryogenesis and formation of various organs and tissues, including mesoderm development, heart structure (endocardial cushion), left-right patterning, cartilage morphogenesis, placenta/trophoblast differentiation, palate formation, pancreatic endocrine development, and overall endocrine system development. This suggests a cohesive theme of early developmental processes guiding organ formation, hence the label Embryonic development and organogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0070895","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1873544333355486375","title":"Cardiac muscle contraction and sarcomere regulation","description":"Most terms point to heart muscle physiology and sarcomere architecture: cardiac muscle contraction, sarcomere organization, and positive/negative regulation of sarcomere organization and heart rate by epinephrine. There are also terms related to vascular smooth muscle cell proliferation/migration and general cell growth, suggesting a broader muscle/vascular regulatory theme, but the central cluster centers on cardiac muscle function and sarcomere dynamics. An outlier term about spicule insertion and an obsolete insulin-response item are likely annotation noise rather than core signals. Overall, the proteins seem to form a cohesive group around heart muscle function and sarcomere structure.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":3},{"id":"GO:0045214","count":2},{"id":"GO:0034609","count":2},{"id":"GO:0003065","count":2},{"id":"GO:1904706","count":2}]},{"hash":"356842969200264015","title":"Neural and Visual System Development and Signaling","description":"The top GO terms point to neural and sensory development (brain development, visual perception, retinal cone cell development) and functions related to synaptic vesicle endocytosis and axoneme assembly, with additional hints of metabolic signaling. This suggests the cluster centers on neural/visual development and signaling processes, rather than a single, cohesive non-neural function. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0042694","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0007601","count":3}]},{"hash":"1061765539804791518","title":"Ribosome biogenesis and rRNA maturation","description":"The terms cluster around ribosome assembly and rRNA maturation (rRNA processing, LSU/5.8S rRNA maturation, ribosome biogenesis) and translation initiation (preinitiation complex formation). This suggests the proteins function mainly in ribosome biogenesis and early translation steps, with additional signals for transcription and mRNA processing reflecting broader gene-expression roles.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0006370","count":2}]},{"hash":"1603315666941166322","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0000463","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0000462","count":5},{"id":"GO:0000466","count":5}]},{"hash":"2232526032313363273","title":"Embryonic Development and Organogenesis","description":"The top terms point to development across multiple organs (brain, sensory systems, heart, pituitary, gonads, kidney) and neural crest migration, with an overarching theme of gene regulation during embryogenesis. This suggests a broad developmental/organogenesis function rather than a single, specific pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0048839","count":6},{"id":"GO:0021983","count":6}]},{"hash":"1606614749721157997","title":"Epigenetic chromatin remodeling and transcriptional regulation","description":"This cluster centers on chromatin-level control of gene expression: nucleosome assembly, chromatin remodeling, and histone modification, including repression of RNA Pol II. Although a few terms relate to defense responses, the dominant signals are epigenetic regulation of transcription.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006334","count":5},{"id":"GO:0043044","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0043966","count":4}]},{"hash":"1231255507879488002","title":"Ribosome biogenesis and mRNA export","description":"This cluster is dominated by GO terms for ribosome production and RNA processing, including ribosome biogenesis, translation, ribosomal subunit export from the nucleus, tRNA processing, mRNA export, and nuclear pore complex assembly, indicating a cohesive theme around nuclear ribosome assembly and RNA trafficking. Some cell cycle-related terms appear but do not override the core signal of ribosome production and RNA transport.","confidence":"High","size":15,"edges":102,"triangles":418,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0008033","count":3},{"id":"GO:0051292","count":3}]},{"hash":"1117896363959764118","title":"Ubiquitin-Dependent Immune Signaling","description":"The cluster is characterized by strong enrichment for ubiquitin-related processes (ubiquitin-dependent proteolysis, autoubiquitination, and K63-linked ubiquitination) together with innate and adaptive immune responses and antiviral signaling regulation (RIG-I pathway) and related signaling cascades (JNK). These connections point to proteins involved in ubiquitin-regulated immune signaling, with one placental morphogenesis term likely incidental. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051865","count":7},{"id":"GO:0060669","count":7},{"id":"GO:0045087","count":6},{"id":"GO:1901253","count":6}]},{"hash":"131561984358181984","title":"Rho/Rac GTPase Signaling and Actin Remodeling","description":"This cluster centers on GO terms related to Rho and Rac GTPase signaling, including positive regulation of GTPase activity and Rho/Rac signal transduction, and on cytoskeletal dynamics such as microspike assembly. Neutrophil chemotaxis also points to actin-driven cell movement guided by these GTPases. While some terms (like vitellogenesis or xenobiotic response) are broader, the dominant theme is Rho/Rac-mediated signaling that governs cytoskeleton remodeling and cell motility.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0030593","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0007266","count":3}]},{"hash":"1029340671559921873","title":"Neuronal Synapse Formation and Plasticity","description":"The top GO terms are dominated by synaptic-related processes: long-term potentiation, synapse assembly, and neurotransmitter secretion, with a note on Purkinje cell layer organization, all suggesting a focus on synaptic structure and plasticity. Additional terms like plasma membrane repair and anti-apoptotic regulation point to neuronal maintenance, while a few cell-cycle terms appear as general background annotations. Overall, the cluster seems best described as proteins involved in synapse formation, function, and plasticity.","confidence":"Medium","size":15,"edges":30,"triangles":0,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060291","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0001778","count":4}]},{"hash":"1174084801058262338","title":"Pollen wall formation and anther dehiscence","description":"The strongest GO signals are pollen exine formation and anther dehiscence, both central to pollen development and pollen-wall biosynthesis in plants. Additional terms related to glycosylation and membrane targeting fit with secreted/pollen-wall proteins, supporting a cohesive theme around pollen wall formation and release.","confidence":"High","size":15,"edges":84,"triangles":250,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010584","count":5},{"id":"GO:0046712","count":4},{"id":"GO:0071405","count":4},{"id":"GO:0009901","count":4},{"id":"GO:0006487","count":4}]},{"hash":"1116562660939043768","title":"Neuronal development and synaptic signaling","description":"Top GO terms cluster around nervous system development, neuron-specific signaling, and synaptic regulation (nervous system development; ERK signaling; regulation of synaptic vesicle endocytosis; long-term synaptic plasticity). This points to a cohesive theme of neuronal development and synaptic function. Some terms such as phospholipid homeostasis and select cell-cycle processes may reflect broader cellular maintenance or cross-talk but do not override the neuronal emphasis.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0055091","count":4}]},{"hash":"273302908900471088","title":"Integrin signaling and cytoskeletal adhesion","description":"This cluster centers on integrin-mediated signaling, cell adhesion, and actin crosslinking, with associated regulation of GTPase activity and signaling complex assembly (protein homooligomerization/heterotrimerization) and overlap with TGF-beta responses and developmental signals. The core theme is adhesion to the ECM and cytoskeletal remodeling driving signaling, with some unrelated terms likely present. ","confidence":"High","size":15,"edges":7,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0035987","count":4},{"id":"GO:0071625","count":4}]},{"hash":"282700213396468370","title":"Moco-dependent redox and sulfur metabolism","description":"The cluster\u2019s strongest signals are redox homeostasis (GO:0045454) and molybdenum cofactor biosynthesis (GO:0006777), complemented by cysteine modification/sulfur-related processes (GO:0018192 and Urmylation). This pattern points to a core theme of redox balance and sulfur metabolism driven by molybdenum enzyme pathways, with other terms likely reflecting broader or pleiotropic roles. ","confidence":"Medium","size":15,"edges":58,"triangles":138,"max_degree":11,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045454","count":9},{"id":"GO:0030855","count":6},{"id":"GO:0006777","count":6},{"id":"GO:0018192","count":6},{"id":"GO:0032467","count":6}]},{"hash":"1242208220586814986","title":"Synaptic vesicle trafficking and neural development","description":"The top GO terms point to vesicle transport between ER and Golgi and regulation of synaptic vesicle exocytosis, as well as neural development and plasticity (brain development, substantia nigra development, long-term synaptic plasticity). There are also terms related to cell junctions and endothelial barriers, which can reflect related vascular-neural interfaces. Taken together, the cluster seems centered on neuronal vesicle trafficking and brain development processes.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:2000300","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0007420","count":5}]},{"hash":"1864604697273552061","title":"Vacuolar amino acid transport","description":"The cluster is dominated by GO terms for transmembrane transport of various amino acids (L-serine, L-histidine, L-alanine, L-lysine, L-asparagine) into and out of the vacuole, suggesting a shared role as vacuolar amino acid transporters. Some unrelated developmental terms (heart development, ureteric bud morphogenesis) appear but do not define the core function; overall, the central theme is vacuolar amino acid transport.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0090516","count":2},{"id":"GO:0089708","count":2},{"id":"GO:0051365","count":2}]},{"hash":"2178495784158268664","title":"mRNA Splicing and Processing Regulators","description":"The GO terms cluster around spliceosome-mediated mRNA splicing (mRNA splicing via spliceosome, splice site recognition, alternative splicing regulation), mRNA processing and export (nuclear export), and regulation of mRNA stability in response to stress, with links to translational control (IRES-dependent initiation, miRNA-mediated silencing). This coherence suggests proteins that function in mRNA maturation and post-transcriptional regulation, supporting a label of mRNA Splicing and Processing Regulators.","confidence":"High","size":15,"edges":100,"triangles":392,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0006378","count":8},{"id":"GO:0000381","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0006376","count":6}]},{"hash":"1798214502652537451","title":"Signaling and cytoskeletal remodeling","description":"The Top Terms point to diverse signaling processes (Wnt, T cell receptor, tyrosine autophosphorylation) and cytoskeletal changes (actin binding, dendritic spine morphogenesis, cell migration), with related roles in endocytosis, innate immunity, and development (heart). Taken together, they suggest a coherent theme of signaling pathways driving cytoskeletal remodeling and related cellular behaviors, across development and immune contexts.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":9},{"id":"GO:0060997","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0072584","count":8},{"id":"GO:0045087","count":8}]},{"hash":"1772209021561008879","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"This cluster is dominated by GO terms tied to mRNA splicing and spliceosome activity, including regulation of alternative splicing and splice site recognition, indicating a cohesive role in RNA processing. While there are also terms related to translation control and stress-responsive mRNA stability, the prevailing signal centers on spliceosome-mediated mRNA processing, justifying a label focused on splicing regulation.","confidence":"High","size":15,"edges":99,"triangles":382,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0048025","count":13},{"id":"GO:0045292","count":12},{"id":"GO:0006376","count":11},{"id":"GO:0075522","count":11}]},{"hash":"297808996822142496","title":"Neuronal projection and dendrite morphogenesis","description":"Dominant GO terms center on neural development and neurite morphology\u2014neuron projection development, dendrite morphogenesis, CNS neuron development, and positive regulation of axon extension\u2014along with regulation of Rho/GTPase signaling and cell adhesion, all pointing to cytoskeletal dynamics that drive neurite outgrowth and connectivity. A couple of terms (memory; IL-2 production) are less directly related and may reflect broader annotations. Overall, the cluster appears to represent neuronal development and morphogenesis of neurites.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031175","count":5},{"id":"GO:0048813","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007613","count":3}]},{"hash":"421296336726580243","title":"Apoptosis and oxidative stress response","description":"The most represented GO terms are cellular response to hydrogen peroxide and apoptotic processes (including extrinsic apoptotic signaling), with accompanying terms about signaling regulation and transcription. This suggests a cluster enriched for stress-induced cell death pathways and their regulation. Some terms (visual perception, GI epithelium maintenance) are less directly connected, likely reflecting annotation overlap or broad functions of some proteins. Overall, the dominant theme points to oxidative stress response and apoptosis signaling, justifying the label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:2000255","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0007601","count":2}]},{"hash":"2107228099659600946","title":"Dopaminergic synaptic signaling and reward learning","description":"This cluster is dominated by neural- and learning-related GO terms: dopaminergic synaptic transmission, operant conditioning, behavioral response to cocaine, visual learning and perception, and ERK pathway regulation, all pointing to dopamine-driven neural signaling and reward-based learning. Peripheral terms like heart development and macrophage chemotaxis appear as less central notes rather than core themes. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0048148","count":14},{"id":"GO:0010759","count":14}]},{"hash":"556627399648865636","title":"RNA splicing and translation regulation","description":"RNA splicing and translation regulation cluster to RNA processing and post-transcriptional control of gene expression. The dominant GO terms span mRNA splicing (spliceosome-mediated splicing and splice-site recognition), alternative splicing regulation, rRNA maturation, and translation-related processes (canonical translation, IRES-driven initiation, miRNA-mediated silencing, and stress-related mRNA stability). This combination suggests a tight coupling between RNA processing and translational control in the proteins. The blastocyst formation term is less central to the core signature. ","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0001825","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0075522","count":3}]},{"hash":"1295583478455721422","title":"Organellar translation and energy production","description":"This cluster combines ribosome-related processes (translation, LSU-rRNA maturation, translation regulation) with energy-generation pathways (mitochondrial electron transport, ATP synthesis, proton transport) and even photosynthetic light reactions. The co-occurrence of organelle-associated protein synthesis terms with respiration and photosynthesis terms suggests a cohesive role in organellar gene expression linked to energy production in mitochondria and/or plastids. ","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0000470","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0019684","count":1}]},{"hash":"2069886664561923381","title":"ER Protein Quality Control and Trafficking","description":"The terms point to endoplasmic reticulum\u2013focused processes: ubiquitin-dependent ERAD, chaperone-assisted refolding, and ER-to-Golgi vesicle transport, plus related protein import into peroxisomes and heat response. This combination suggests a functional cluster around folding/quality control in the ER and trafficking of proteins through the secretory pathway, with some outliers likely representing noise.","confidence":"High","size":15,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0070389","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0019878","count":2}]},{"hash":"2125069864157821679","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0045071","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0035455","count":5},{"id":"GO:0045087","count":4}]},{"hash":"889979188788154241","title":"Developmental morphogenesis and cell dynamics regulators","description":"The cluster\u2019s top GO terms cluster around development and organ morphogenesis (root development, fungiform papilla formation, metanephros morphogenesis), alongside cell cycle regulation, cytokinesis, cell migration, and calcium-dependent adhesion. This suggests proteins involved in tissue shaping during development, coordinating cell division, movement, and adhesion. ","confidence":"High","size":15,"edges":46,"triangles":32,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048364","count":8},{"id":"GO:0007050","count":7},{"id":"GO:0032467","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0061198","count":6}]},{"hash":"619443768722003842","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal subunit export from the nucleus, and cytoplasmic translation, with supporting terms for translation and cell cycle/division. This suggests the proteins collectively participate in ribosome assembly and protein synthesis. ","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2}]},{"hash":"856533385505371848","title":"Neuronal growth signaling","description":"The set centers on signaling pathways (ERK cascade, Wnt), cytoskeletal remodeling, and processes tied to neurite outgrowth and synaptic activity (positive regulation of axon extension, excitatory postsynaptic potential). This points to a module coordinating neuronal development and signaling rather than a single immune or cell-cycle function, though an outlier term about defense response appears incidental to the core theme. ","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0006351","count":11},{"id":"GO:0050830","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0031532","count":11}]},{"hash":"602623412501246144","title":"MAPK-driven axon guidance in neural development","description":"The proteins are linked to MAPK signaling (ERK1/2 and JNK cascades), actin cytoskeleton remodeling, axon extension/guidance, and nervous system development, indicating a cohesive role in neural wiring and growth cone signaling.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":12},{"id":"GO:0031532","count":12},{"id":"GO:0043552","count":12},{"id":"GO:0045773","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1697510345788688835","title":"Immune Signaling and Chemotaxis","description":"The GO terms cluster around signaling pathway activation (STAT tyrosine phosphorylation, ERK/MAPK cascade, calcium signaling, PI3K-related signaling) in response to diverse stimuli (TGF-beta, insulin, retinoic acid, M-CSF) and include immune cell movement cues (neutrophil chemotaxis, smooth muscle migration). This suggests a theme of signaling networks that drive immune-related responses and cell migration, rather than a single pathway, hence the label. ","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042531","count":12},{"id":"GO:0071560","count":12},{"id":"GO:0070374","count":12},{"id":"GO:0032869","count":12},{"id":"GO:0071300","count":12}]},{"hash":"1200978965161635671","title":"Ribosome biogenesis and translation machinery","description":"Based on the GO terms, the cluster centers on protein synthesis and ribosome function: translation in general, small subunit (SSU) assembly, ribosome disassembly, mitochondrial translation, translational termination, SSU rRNA maturation, and tRNA aminoacylation by glycyl- and arginyl-tRNA synthetases. These together indicate components and processes of the ribosome and translation apparatus, with a minor incidental term related to viral regulation. Therefore, the label reflects the cohesive theme of ribosome biogenesis and translation machinery.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000028","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0032790","count":2},{"id":"GO:1990145","count":2}]},{"hash":"1475433683567373878","title":"Musculoskeletal development and cell migration","description":"Based on the top GO terms, bone development and mineralization, muscle differentiation, and peripheral nervous system myelination point to musculoskeletal and neural development; additional terms for substrate adhesion, stress fiber, and ruffle assembly indicate cytoskeletal remodeling and cell movement during morphogenesis. A caveolin-mediated endocytosis signal and an innate immune term may reflect multifunctionality or broader tissue remodeling contexts.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0051496","count":3}]},{"hash":"347532263957466218","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The top GO terms concentrate on actin cytoskeleton dynamics (stress fiber assembly, actin cytoskeleton reorganization), cell migration, and related PI3K/AKT signaling, all pointing to cytoskeletal remodeling driving cell movement. A few terms touch broader developmental or signaling contexts (placenta development, retinoic acid response, LPS response), but the dominant pattern is cytoskeletal remodeling and motility.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1440340128239376904","title":"DNA transcription regulation and nucleotide metabolism","description":"The top GO terms show DNA-templated transcription and its negative regulation, plus L-glutamine metabolism and PRPP biosynthesis, suggesting a link between transcription control and nucleotide production. Additional terms like phosphorylation, DNA recombination, and heat acclimation point to a broader DNA metabolism and stress-response theme. So, labeling this cluster as transcription regulation connected to nucleotide metabolism captures the central pattern.","confidence":"Medium","size":15,"edges":68,"triangles":139,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006541","count":8},{"id":"GO:0016310","count":6},{"id":"GO:0045892","count":6},{"id":"GO:0099133","count":5}]},{"hash":"2107702408901992899","title":"Cell signaling and immune response regulators","description":"These proteins appear to cluster around signaling and its regulation, including innate immune pathways (NOD2 signaling, NF-kappaB regulation), developmental/other signaling (Wnt), and GPCR-related signaling motifs, along with ubiquitination and processes like pinocytosis and chemokine production. The mix suggests a group of regulators of multiple signaling networks rather than a single pathway, justifying a label centered on cell signaling and immune modulation. ","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0048549","count":3}]},{"hash":"1290336992440615447","title":"Neuronal vesicle trafficking and exocytosis","description":"The top GO terms cluster around synaptic vesicle processes and neuronal signaling: presynaptic dense core vesicle exocytosis, synaptic vesicle priming and maturation, and innervation, all pointing to vesicle trafficking and secretion in neurons. While a couple of terms appear unrelated (e.g., mismatch repair, blood vessel remodeling), the dominant signal is neuronal secretory machinery and synaptic vesicle cycling, justifying a label focused on this function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035773","count":3},{"id":"GO:0099525","count":2},{"id":"GO:0002692","count":2},{"id":"GO:0016082","count":2},{"id":"GO:0060384","count":2}]},{"hash":"1648826430620176734","title":"Rho/Rac GTPase Cytoskeleton Regulators","description":"The proteins show enrichment for negative regulation of Rho and Rac signaling, regulation of GTPase activity, stress fiber organization, and cell shape/polarity establishment, pointing to a shared role in modulating small GTPase\u2013driven cytoskeletal dynamics and cell polarity; some related terms (Golgi localization, insulin signaling) may reflect broader regulatory connections rather than core function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":4},{"id":"GO:0051497","count":4},{"id":"GO:0008625","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0048009","count":3}]},{"hash":"683650531444891318","title":"Bacterial cell wall glycosylation and teichoic acid biosynthesis","description":"This cluster is characterized by glycosylation and biosynthesis of bacterial cell wall components, notably O-linked glycosylation via GalNAc, teichoic acid biosynthesis, and UDP-glucose metabolism, with additional signals for extracellular polysaccharide production (cellulose and hyaluronan). The overall theme points to envelope construction and glycosylation in Gram-positive bacteria; the Ig production term may be a misannotation but does not override the main pattern.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":5},{"id":"GO:0071555","count":5},{"id":"GO:0002378","count":4},{"id":"GO:0030244","count":4},{"id":"GO:0030213","count":4}]},{"hash":"1413807316343752088","title":"Signaling and cytoskeletal dynamics","description":"The top GO terms point to intracellular signaling (voltage-gated Ca2+ channel regulation, PKA signaling, NF-kappaB signaling) and cytoskeletal remodeling (actin crosslink formation), with additional terms touching on inflammatory responses and development. The cluster appears to group proteins involved in signal transduction and cytoskeletal regulation rather than a single, cohesive pathway, and there are no edges linking members, so the label reflects a broad, cohesive theme without overfitting.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":2},{"id":"GO:0035690","count":2},{"id":"GO:1901387","count":2},{"id":"GO:0010738","count":2},{"id":"GO:0001966","count":2}]},{"hash":"957782866748560734","title":"Neural development and signaling","description":"This cluster is dominated by neural development terms (cerebellar cortex formation, Bergmann glial differentiation, regulation of axon regeneration) alongside insulin receptor signaling, suggesting a neural development and signaling theme. However, the presence of immune signaling (T cell receptor signaling), cell cycle/mitosis (kinetochore localization, CDK activity regulation), and endocytosis terms introduces non-neural processes, so the connection is present but not exclusive. ","confidence":"Medium","size":15,"edges":58,"triangles":99,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021697","count":15},{"id":"GO:0008286","count":15},{"id":"GO:0060020","count":15},{"id":"GO:0050852","count":15},{"id":"GO:0045736","count":15}]},{"hash":"270299579761179580","title":"Neural development and neuroimmune signaling","description":"The cluster includes neural development-related terms (neuron projection development, trigeminal nerve sensory nucleus development) and synaptic modulation (inhibitory postsynaptic potential), suggesting a focus on neural development and function. It also contains immune-related terms (granzyme B production, neutrophil extravasation/clearance, MHC class I antigen presentation), indicating possible neuroimmune interactions. Overall, the terms point to a theme of neural development with neuroimmune signaling rather than a single isolated function.","confidence":"Medium","size":15,"edges":33,"triangles":12,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":5},{"id":"GO:0035157","count":5},{"id":"GO:0071663","count":5},{"id":"GO:2000391","count":5},{"id":"GO:0021740","count":5}]},{"hash":"2128900295167490928","title":"Neuronal signaling and synaptic plasticity","description":"The terms cluster around ion transport (sodium/potassium), GABA signaling, membrane depolarization, excitatory postsynaptic potentials, and learning-related plasticity (long-term potentiation), with ties to sensory perception and behavior (taste aversion, locomotion). This points to a cohesive theme of neuronal communication and synaptic plasticity underlying behavior.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":6},{"id":"GO:0007214","count":6},{"id":"GO:0060079","count":6},{"id":"GO:0051899","count":6},{"id":"GO:0001661","count":6}]},{"hash":"1594797455998525218","title":"Unknown","description":"The top GO terms span fat cell differentiation, cell migration, telomere maintenance regulation, mRNA processing, lipid catabolic processes, and miscellaneous regulatory activities. With no edges and a broad mix of unrelated processes, there isn\u2019t a single cohesive function linking these proteins, so a specific label isn\u2019t warranted.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":6},{"id":"GO:0016477","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0035994","count":6},{"id":"GO:0032212","count":6}]},{"hash":"829423300520873524","title":"Pain and inflammation with vascular regulation","description":"Top GO terms indicate nociception (sensory perception of pain), inflammatory response, and responses to LPS, along with vasoconstriction and smooth muscle regulation, suggesting a coherent theme of pain signaling linked to innate immune/inflammatory responses and vascular/tone control.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0006954","count":9},{"id":"GO:0032496","count":9}]},{"hash":"136136884074639257","title":"Neuronal GPCR signaling and neuroimmune modulation","description":"This cluster centers on neural signaling and sensory processing: terms like activation of adenylate cyclase, PLC-activating serotonin receptor signaling, and opsin-mediated signaling point to GPCR-driven neurotransmission and plasticity (visual learning, operant conditioning). The immune and vascular terms (IL-8 production, eosinophil chemotaxis, astrocyte chemotaxis, blood pressure regulation) suggest cross-talk between neural signaling and immune/vascular responses. Overall, the proteins appear to participate in neuronal signal transduction with neuroimmune interplay.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":15},{"id":"GO:0035106","count":15},{"id":"GO:0007190","count":15},{"id":"GO:2000484","count":15},{"id":"GO:0007208","count":15}]},{"hash":"823792724403373978","title":"Immune Signaling and MAPK Activation","description":"The top GO terms cluster around immune response and signaling: innate immune response, IL-1-mediated signaling, defense against Gram-positive bacteria, and T cell receptor signaling, plus positive regulation of the ERK1/ERK2 cascade, indicating MAPK pathway involvement in immune activation. While terms for nervous system development, cholesterol biosynthesis, and glucose response appear, they are less consistent with the core theme, so the label emphasizes immune signaling with MAPK involvement.","confidence":"Medium","size":15,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0006695","count":7},{"id":"GO:0070498","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0070374","count":6}]},{"hash":"1286794175279590391","title":"Cardiac development and calcium signaling","description":"The cluster\u2019s top GO terms center on heart contraction and calcium signaling processes (regulation of SR calcium release, store-operated calcium channel activity, and electrical coupling in cardiac conduction), suggesting a cohesive theme around calcium handling in cardiac development and function, even though some terms also touch on broader developmental processes like limb and palate formation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042264","count":3},{"id":"GO:0035108","count":3},{"id":"GO:0060021","count":3},{"id":"GO:1901879","count":3},{"id":"GO:0032237","count":3}]},{"hash":"26635838259976514","title":"Axon guidance and neural development","description":"These terms cluster around neuronal development and axon guidance, including semaphorin-plexin signaling, commissural and dorsal root ganglion axon guidance, axon extension, retina layer formation, vestibulocochlear nerve organization, and neural crest migration. A few terms relate to broader morphogenesis (bone and coronary), but the dominant theme is neural development and axon pathfinding, supporting this label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0010842","count":4},{"id":"GO:1902287","count":4},{"id":"GO:1904835","count":4},{"id":"GO:0048846","count":4},{"id":"GO:0060982","count":4}]},{"hash":"127582999991814733","title":"Mitochondrial Metabolite Transport","description":"This cluster is dominated by transmembrane transport GO terms for metabolites and cofactors (phosphate, CoA, citrate, malate-aspartate shuttle, thiosulfate, heme) across mitochondrial membranes, pointing to a cohesive theme of mitochondrial metabolite transport and related metabolic regulation (including insulin response). Some terms are broader, but the prevalent pattern supports a mitochondria-centered transport function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035435","count":13},{"id":"GO:0035349","count":13},{"id":"GO:0000002","count":13},{"id":"GO:0043490","count":13},{"id":"GO:0060546","count":13}]},{"hash":"1690355512027428679","title":"Unknown","description":"The GO terms are highly diverse\u2014cell wall organization, sugar metabolism, cell division and centrosome regulation, plus host-virus interaction and immune-related regulation\u2014without a clear, single biological function unifying the cluster. This lack of cohesion makes a specific, representative label unreliable.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0045347","count":2},{"id":"GO:1904780","count":2},{"id":"GO:0044829","count":2}]},{"hash":"69730211792011105","title":"Unknown","description":"The top GO terms are highly diverse, spanning transcription, neural development, cytoskeleton dynamics, immune defense, nutrient response, and stress-induced apoptosis, with no single cohesive biological theme. The lack of edges and a clear common function among these terms suggests the proteins do not share a unified role, making a specific, intuitive label unreliable. Therefore, a cautious Unknown label is appropriate.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001843","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0007584","count":2}]},{"hash":"861497058233977329","title":"Protein acetylation and chromatin maintenance","description":"The cluster\u2019s top GO terms are dominated by acetylation-related processes (N-terminal and lysine acetylation, and propionylation), suggesting a core function in protein modification. Additionally, terms related to chromatin regulation (subtelomeric heterochromatin formation and centromeric cohesion) imply a link to chromatin maintenance. While other metabolic processes appear, the shared signal centers on acetylation-driven regulation and chromatin-associated functions.","confidence":"Medium","size":15,"edges":24,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0061606","count":7},{"id":"GO:0006348","count":7},{"id":"GO:0010125","count":7},{"id":"GO:0017196","count":7}]},{"hash":"2115278381129688293","title":"Epigenetic Regulation of Transcription","description":"The top terms cluster around chromatin modification and transcription control, including histone H3K9 methylation, H4K16 acetylation, and regulation of gene expression by imprinting and RNA polymerase II. While there are a few mentions of protein turnover and EGFR signaling, the dominant theme is epigenetic regulation of transcription and chromatin state. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051573","count":3},{"id":"GO:0051567","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0043984","count":3}]},{"hash":"2259468180248968780","title":"Membrane Trafficking and Signaling","description":"This cluster centers on vesicle organization and transport (synaptic vesicle clustering; endosome to plasma membrane transport) with additional immune and developmental signaling terms (interferon responses, biotic stimulus, glucose import in response to insulin, bone morphogenesis/mineralization, neuromuscular control). The common thread appears to be membrane-associated trafficking and signaling that spans neural, immune, and developmental contexts, justifying a label focused on membrane trafficking and signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097091","count":2},{"id":"GO:0099638","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0035456","count":2},{"id":"GO:0044381","count":2}]},{"hash":"1184487581608040627","title":"Telomere maintenance and telomerase regulation","description":"Based on the GO terms, the strongest signal is telomere biology: positive regulation of telomere maintenance via telomerase, telomere capping, and telomere localization to chromosome telomeric regions, along with regulation of telomeric DNA binding. While terms like fat cell differentiation and SA node action potential appear, they are less central to this cluster, suggesting telomere regulation is the primary theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0045444","count":6},{"id":"GO:0016477","count":6},{"id":"GO:1904908","count":6}]},{"hash":"1156529302113691968","title":"Growth and Development Signaling Pathways","description":"This cluster aggregates proteins involved in several signaling pathways (TORC2, insulin/IGF, ephrin, Ras) with developmental and immune roles (bone development, vitellogenesis, B cell homeostasis), indicating a growth- and development-signaling theme rather than a single function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038203","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0007296","count":2}]},{"hash":"64479707872406893","title":"Unknown","description":"The GO terms are highly heterogeneous: two relate to sperm development (acrosome assembly, sperm axoneme assembly) while others involve lipid metabolism, chromatin formation, Rho signaling, and developmental processes in non-overlapping contexts. With no clear shared pathway or function across the proteins, there isn\u2019t a coherent label that accurately represents the cluster. Therefore the cluster is best termed Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":2},{"id":"GO:2000495","count":1},{"id":"GO:0072327","count":1},{"id":"GO:0046294","count":1},{"id":"GO:0031508","count":1}]},{"hash":"745619592233401594","title":"Cardiac Ion Channel Regulation","description":"Several GO terms point to cardiac electrophysiology, including regulation of heart rate by cardiac conduction, regulation of atrial cardiac muscle cell membrane repolarization, positive regulation of voltage-gated calcium channel activity, and negative regulation of delayed rectifier potassium channel activity. While other terms in the set (e.g., amino acid catabolism, xenobiotic response, tongue development) are less connected, the dominant theme across the cluster is regulation of ion channels and cardiac electrical activity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:0090315","count":1},{"id":"GO:1901800","count":1},{"id":"GO:1902260","count":1},{"id":"GO:0035690","count":1}]},{"hash":"401186235295294601","title":"Cell signaling and synapse organization","description":"This cluster is characterized by GO terms centered on signaling pathway regulation (Rho, ERK cascades, GPCR-related activity) and processes related to cell communication and structure, such as synapse organization and localization to cell junctions. While there are additional immune (B cell receptor signaling, dendritic cell differentiation) and germ cell (spermatid development) terms, the common theme is modulation of signaling networks and intercellular communication. Medium","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0070374","count":2},{"id":"GO:0050808","count":2}]},{"hash":"313126463882864071","title":"Muscle development and transcription regulation","description":"The top terms cluster around muscle formation and differentiation (heart development, skeletal muscle cell differentiation, myotube development), supported by transcriptional control processes (DNA-templated transcription, RNA polymerase II\u2013mediated transcription, nucleosome assembly). The presence of dexamethasone response and signaling modulation (negative regulation of protein kinase activity) fits a coordinated transcriptional program active during muscle development and glucocorticoid signaling. Overall, this cluster represents muscle differentiation with a strong transcriptional-regulatory component.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071549","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0043516","count":2}]},{"hash":"2087839549797671051","title":"Embryonic development and tissue morphogenesis","description":"The GO terms are largely centered on developmental processes and tissue morphogenesis across multiple organs (placenta, palate, cartilage, hair follicles, endocrine system) and patterning (left/right). A single general term about transcriptional repression likely reflects regulatory control within development rather than a separate process. Thus, this label best represents the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0060806","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0031069","count":4}]},{"hash":"287404348502819796","title":"Circadian- and stress-responsive transcription regulation","description":"The cluster is dominated by GO terms related to regulating transcription from RNA polymerase II promoters, with specific emphasis on circadian rhythm and responses to stressors (oxidative stress, hypoxia) and drugs. This pattern suggests proteins that modulate transcription in response to circadian and environmental cues, rather than core enzymatic activities. A couple of development-related terms may reflect broader transcriptional regulatory roles in developmental processes.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042753","count":14},{"id":"GO:0000160","count":14},{"id":"GO:0061414","count":14},{"id":"GO:0043619","count":14},{"id":"GO:0060713","count":14}]},{"hash":"1838606097059645586","title":"Thymic T cell tolerance and thymus morphogenesis","description":"The dominant terms point to central and peripheral T cell tolerance (self-antigen and peripheral tolerance) and thymus epithelium morphogenesis, indicating a cluster tied to T cell education in the thymus. Some apoptotic signaling terms align with thymocyte selection, while a few older, obsolete chromatin modification terms are likely noise. Overall, the cluster centers on thymic development and T cell tolerance rather than general signaling pathways.","confidence":"High","size":14,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002509","count":3},{"id":"GO:2000584","count":3},{"id":"GO:0097190","count":3},{"id":"GO:0002458","count":3},{"id":"GO:0010216","count":3}]},{"hash":"534009598460819147","title":"Embryonic neural and craniofacial morphogenesis","description":"The top GO terms point to vertebrate embryonic development with a focus on neural lineage and craniofacial structures: peripheral nervous system neuron development, retinal ganglion cell axon guidance, rhombomere (hindbrain) development, primitive streak formation, and viscerocranium/palate morphogenesis, plus pituitary gland development. There is also regulation of transcription by RNA polymerase II, which aligns with developmental gene control. Taken together, these terms reflect a coherent theme of early embryonic neural and craniofacial patterning and morphogenesis.","confidence":"High","size":14,"edges":87,"triangles":318,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0090009","count":8},{"id":"GO:0060021","count":7},{"id":"GO:0048703","count":7},{"id":"GO:0000122","count":7}]},{"hash":"2061736494701551319","title":"Vesicle Trafficking and Ubiquitination","description":"The most represented terms point to protein ubiquitination and membrane trafficking activities (clathrin-mediated endocytosis, vesicle coating, intracellular transport) and polarity establishment, suggesting a cluster of proteins involved in sorting and trafficking of proteins within cells. Some apoptosis and neural development terms are present but appear less central to the core trafficking theme.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0090162","count":4},{"id":"GO:0016183","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0006886","count":3}]},{"hash":"1142392944515992486","title":"Embryonic neural and sensory organ morphogenesis","description":"Most top GO terms point to development of neural and sensory structures (midbrain, dopaminergic neurons, inner ear, cochlea, eye), with additional limb morphogenesis terms indicating broader embryonic morphogenesis. The common theme is embryonic formation of neural and sensory tissues, with some regulatory transcription processes. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":4},{"id":"GO:0035116","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0045617","count":3}]},{"hash":"372339820307830701","title":"Neural development and cell adhesion","description":"This cluster is dominated by GO terms related to cell adhesion (homophilic and heterophilic) and neural connectivity processes (nervous system development, positive regulation of synapse assembly, positive regulation of collateral sprouting), pointing to neuronal development and synapse formation mediated by adhesion molecules. While ossification and innate immune terms appear, they are less central to the main theme. Overall, neural development and adhesion best explain the cluster.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0051965","count":8},{"id":"GO:0048661","count":7}]},{"hash":"1600779184171811254","title":"Ubiquitin-Mediated Immune Regulation","description":"The top GO terms indicate strong involvement in ubiquitin-dependent protein degradation and ubiquitination (including ERAD and K63-linked) along with immune signaling and host defense (adaptive immunity, TNF signaling, NF-kB activity) and antiviral responses, suggesting a cluster of proteins that regulate immunity through ubiquitin pathways, with some connection to development.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0002250","count":4}]},{"hash":"1657856374311132596","title":"Neural development and synaptic function","description":"The top GO terms are dominated by neural development and synaptic processes (corticospinal tract morphogenesis, chemical synaptic transmission, regulation of synaptic vesicle clustering, radial glial differentiation, neuronal stem cell maintenance), suggesting the cluster reflects genes involved in neuronal differentiation and synaptic regulation. Some terms touch on other developmental contexts, but the central theme is neural development and synaptic function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":14},{"id":"GO:0007268","count":14},{"id":"GO:2000807","count":14},{"id":"GO:0048105","count":14},{"id":"GO:0003273","count":14}]},{"hash":"1631949570413214773","title":"Nuclear export and transcription regulation","description":"This cluster is enriched for nuclear processes: mRNA export and ribosomal subunit export from the nucleus, and nuclear pore complex assembly, point to nucleocytoplasmic transport; the presence of negative regulation of transcription by RNA polymerase II ties in transcriptional control within the nucleus. Additional terms related to kinetochore localization and centrosome duplication suggest connections to cell-cycle/nuclear organization, reinforcing a cohesive theme around nuclear transport and transcription regulation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0034501","count":7},{"id":"GO:0000055","count":6},{"id":"GO:0010824","count":6},{"id":"GO:0006406","count":6}]},{"hash":"1112971274857678602","title":"Neural development and glial proliferation","description":"These proteins cluster around neural development and glial biology: neural tube closure, forebrain radial glial differentiation, and glial cell proliferation point to a neurodevelopmental/glial lineage theme, supported by mitotic cell cycle and DNA-templated transcription terms. The inclusion of negative regulation of Wnt signaling and cellular response to TGF-beta suggests signaling modulation key to neurogenesis, with transcriptional control underpinning glial differentiation.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0008542","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1103385600679032204","title":"RNA splicing and translation initiation","description":"This cluster is dominated by spliceosome-mediated mRNA processing (positive/negative regulation of splicing, splice site recognition) and related RNA maturation steps, with several terms also pointing to translation initiation steps (preinitiation complex formation, translation reinitiation, IRES-dependent initiation), indicating a coordinated role in RNA processing and translational control.","confidence":"High","size":14,"edges":13,"triangles":3,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0010610","count":7},{"id":"GO:0048025","count":7}]},{"hash":"1923796863471650475","title":"Developmental signaling and morphogenesis","description":"This cluster's top GO terms include neural tube closure and neural plate axis specification (neural development), mammary gland morphogenesis/differentiation, and regulation of hedgehog signaling (Smoothened). Lipid-related processes (isoprenoid biosynthesis and cellular response to cholesterol) tie into cholesterol-dependent Hedgehog signaling, suggesting a cohesive theme of developmental signaling and tissue morphogenesis rather than a single metabolic function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0021997","count":2},{"id":"GO:0045138","count":2}]},{"hash":"410601718843632600","title":"Ribosome biogenesis and translation","description":"The cluster centers on translation-related processes (translation, translational initiation, cytoplasmic translation) and ribosome biogenesis/assembly (ribosome biogenesis, ribosomal small subunit biogenesis, ribosomal small subunit assembly), including maturation of SSU-rRNA. The presence of these ribosome-associated GO terms suggests the proteins collectively function in ribosome production and protein synthesis, with a possible link to antibiotic response due to antibiotics targeting ribosomes.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000462","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1519278358586623763","title":"Vesicle trafficking and exocytosis","description":"These terms cluster around vesicle trafficking and exocytosis (calcium-dependent exocytosis regulation, synaptic vesicle budding), as well as ER-Golgi and endosome/lysosome transport and lysosomal membrane organization. The dominant theme is the secretory pathway and vesicle dynamics; a few terms about apoptosis or epithelial polarity appear peripheral to this core function.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":4},{"id":"GO:0060999","count":4},{"id":"GO:0097212","count":3},{"id":"GO:1902824","count":3},{"id":"GO:0055108","count":3}]},{"hash":"2250623859701340636","title":"Chromatin remodeling in development","description":"This cluster combines chromatin dynamics terms (nucleosome disassembly; histone modification) with broad developmental processes (metencephalon development; uterus morphogenesis; tarsal gland development), suggesting a theme of developmental gene regulation via chromatin remodeling.","confidence":"Medium","size":14,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0022037","count":2},{"id":"GO:0051039","count":2},{"id":"GO:1903699","count":2},{"id":"GO:0006337","count":2},{"id":"GO:0097676","count":2}]},{"hash":"1133566994458915806","title":"MAPK signaling and RNA processing","description":"The cluster\u2019s top GO terms highlight ERK1/ERK2 and p38 MAPK cascades with stimuli such as PMA and GM-CSF, indicating MAPK pathway involvement. Concurrently, terms for mRNA processing, splicing, and export point to post-transcriptional regulation. Together they suggest a functional module where MAPK signaling intersects with RNA processing.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1904628","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0070371","count":5},{"id":"GO:0038066","count":5},{"id":"GO:0098789","count":4}]},{"hash":"1800494094435985329","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by translation and cytoplasmic translation (GO:0006412, GO:0002181) and ribosomal large subunit biogenesis (GO:0042273), indicating the cluster primarily centers on ribosome function and protein synthesis. Other terms (stress/immune responses, mitochondrial organization, vacuolar targeting) appear to be secondary or context-related rather than defining the cluster\u2019s core function.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0002181","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0006977","count":2},{"id":"GO:0070266","count":2}]},{"hash":"1897093369831494693","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster shows strong enrichment for mRNA splicing terms (cis and alternative splicing, splice site recognition) and general mRNA processing/regulation (stability, miRNA-mediated silencing, IRES-dependent translation), indicating a cohesive group of spliceosome components and post-transcriptional regulators governing RNA maturation and translation control.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:1901407","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0006376","count":7},{"id":"GO:0075522","count":7}]},{"hash":"308007521640927361","title":"Core cellular growth and metabolism","description":"Top GO terms span essential housekeeping processes: glycogen and fatty-acyl-CoA biosynthesis, response to starvation, transcription antitermination, translation, protein oligomerization, and core cell-cycle activities like DNA replication and cell division. The cluster combines broad anabolic and growth-related functions rather than a single specific pathway, indicating a general \"core cellular growth and metabolism\" theme. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0031564","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051260","count":2}]},{"hash":"179239676988079191","title":"Ribosome Biogenesis and Translation","description":"The proteins cluster around core translation processes: many terms relate to translation stages (initiation, elongation, termination), ribosome biogenesis, and even mitochondria-specific translation and selenocysteine incorporation, indicating a shared role in protein synthesis machinery and its regulation.","confidence":"High","size":14,"edges":56,"triangles":135,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0046677","count":5},{"id":"GO:0045903","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0001514","count":3}]},{"hash":"522385005225289399","title":"RNA processing and miRNA regulation","description":"The cluster centers on RNA metabolism, with terms tied to spliceosome assembly and mRNA splicing, RNA localization, and regulation of miRNA processing/miRNA metabolic pathways, plus gene silencing by siRNA-directed DNA methylation\u2014indicating a cohesive theme of post-transcriptional regulation and small RNA pathways (plants may be involved, given seed germination term). While a few terms are broader (xenobiotic response, phosphorylation regulation), the dominant signal is RNA processing and RNA-mediated regulation.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000956","count":1},{"id":"GO:2000636","count":1},{"id":"GO:2000630","count":1},{"id":"GO:0080188","count":1},{"id":"GO:0009845","count":1}]},{"hash":"2117937917105671627","title":"Neurodevelopment and Axon Guidance","description":"These terms cluster around neural development and axon guidance: retinal and interneuron migration, axon pathfinding, synapse assembly, and cell adhesion/ECM interactions in neural tissue. While some terms reflect broader developmental processes (endoderm, notochord), the prominent neural-specific terms indicate a neurodevelopment and axon guidance theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035987","count":8},{"id":"GO:0030199","count":7},{"id":"GO:0043277","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0021836","count":7}]},{"hash":"445674890309293744","title":"B cell and innate immune signaling","description":"This cluster is dominated by GO terms related to innate immunity and B cell signaling (innate immune response; B cell receptor signaling; positive regulation of B cell proliferation), plus related signaling activities (tyrosine phosphorylation, Rho/GTPase regulation) and developmental processes. The combination suggests proteins involved in immune cell activation and signaling pathways, with some broader developmental roles, rather than a single non-immune function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1373994550803550093","title":"Ubiquitin-regulated migration and cytoskeleton signaling","description":"This cluster combines ubiquitin-dependent catabolic processes with cytoskeletal remodeling (filopodium assembly), Rho and integrin signaling, and cell migration. Together these terms point to a module where ubiquitin turnover modulates signaling pathways that drive cytoskeletal dynamics and directed movement, with possible links to immune cell (B cell) migration and related membrane signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0046847","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0071108","count":3}]},{"hash":"725230959367043078","title":"Complement and Coagulation with Fibrinolysis","description":"This cluster is dominated by GO terms linking innate immunity and proteolytic cascades: complement activation (classical and lectin pathways), response to lipopolysaccharide, positive regulation of blood coagulation, and plasminogen activation, which together point to a coordinated immune-coagulation-fibrinolysis module. A couple of terms about axis specification or neuronal localization are less central, but do not override the prevailing theme of complement/coagulation processes.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0002315","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0071205","count":5},{"id":"GO:0002542","count":5}]},{"hash":"1550748780504229271","title":"Nucleocytoplasmic export regulation and TGF-\u03b2 signaling","description":"The top GO terms cluster around negative regulation of TGF-\u03b2 receptor signaling and cellular responses to TGF-\u03b2, coupled with multiple terms for regulation of nuclear export (protein, mRNA, tRNA). Ubiquitin-dependent protein catabolic processes and MV sorting also appear, suggesting a link between signaling, protein turnover, and nuclear-cytoplasmic trafficking. A few terms touch sterol/fatty acid biosynthesis, but the dominant theme is regulation of nucleocytoplasmic transport in conjunction with TGF-\u03b2 pathway modulation.","confidence":"Medium","size":14,"edges":73,"triangles":184,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030512","count":9},{"id":"GO:0071560","count":7},{"id":"GO:0046827","count":7},{"id":"GO:2000650","count":6},{"id":"GO:0042787","count":6}]},{"hash":"194107128756985535","title":"Inner ear development and auditory function","description":"This cluster is anchored by terms related to hearing and inner-ear structures (sensory perception of sound; labyrinthine layer blood vessel development; positive regulation of nerve impulse transmission), plus ion transport and collagen organization that support cochlear homeostasis and extracellular matrix remodeling. While some immune and reproduction-related terms appear, the dominant pattern centers on inner-ear development and auditory signaling. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0045907","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0010765","count":4},{"id":"GO:0007340","count":4},{"id":"GO:1900026","count":4}]},{"hash":"1285904187932108657","title":"Integrin signaling and actin dynamics","description":"This cluster is dominated by GO terms related to integrin activation and integrin-mediated signaling, along with regulation of Rho and Ras pathways, filopodium and podosome assembly, and cytoskeletal remodeling. The presence of hyaluronan metabolism and platelet activation hints at ECM interaction and adhesion-related processes. Together, these points converge on a theme of integrin-driven adhesion and actin cytoskeleton dynamics.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0046847","count":9},{"id":"GO:0033623","count":8},{"id":"GO:0033622","count":8},{"id":"GO:0045792","count":8}]},{"hash":"1900236453168246647","title":"Neurodevelopment with cell-cycle regulation","description":"This cluster centers on nervous system development, axon extension, and cell migration, indicating roles in neural differentiation and morphogenesis. It also includes mitotic cell cycle terms (G1/S and G2/M transitions, mitotic cell cycle), suggesting involvement in progenitor proliferation. The coexistence of neural-development signals with cell-cycle control points toward coordination of neurogenesis, where proliferation and differentiation are linked. Confidence is moderate due to mixed emphasis but a coherent neural-development and cell-cycle theme is evident.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0000082","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0030097","count":4}]},{"hash":"126229355391560976","title":"Innate antibacterial defense and wound response","description":"The cluster is dominated by GO terms pointing to antibacterial and antimicrobial defense (defense response to Gram-positive bacterium, antibacterial humoral response, response to antibiotic) and oxidative burst (positive regulation of superoxide anion generation), along with tissue injury signaling (response to wounding). These together suggest a coherent theme of innate antimicrobial defense and damage response, with some T cell\u2013related terms likely representing incidental associations. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0019731","count":3},{"id":"GO:0019933","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0009611","count":2}]},{"hash":"1828312652306782356","title":"Organ Development and Growth Signaling","description":"These proteins show enrichment across multiple organ-development terms (CNS, heart, skeletal), plus core growth and signaling pathways (IGF receptor signaling, PI3K/AKT, Rho signaling) and related processes like dendritic spine regulation and ion transport. The common thread is broad developmental signaling across tissues rather than a single, specific function, so the label reflects a developmental-growth signaling theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007417","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0010765","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0061000","count":7}]},{"hash":"1140594256220856094","title":"Protein quality control and ER-to-Golgi trafficking","description":"The top GO terms point to ubiquitin-dependent ERAD, protein ubiquitination, and ER-to-Golgi vesicle transport, all central to protein quality control and trafficking through the secretory pathway. Additional terms like microtubule severing and cell division reflect cytoskeletal and mitotic contexts that support vesicle movement and organelle dynamics, aligning these proteins around maintenance and routing of proteins rather than a single structural function. Some terms (peroxisomal import, centromere assembly) are broader, but do not override the dominant trafficking/quality-control theme.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0061641","count":2}]},{"hash":"954500611317969236","title":"Neurodevelopment and secretory vesicle trafficking","description":"This cluster centers on brain development and neural signaling (brain development, excitatory postsynaptic potential) and a strong secretory pathway signal (COPII-coated vesicle budding, ER-Golgi transport). The presence of mitotic terms suggests proliferative precursor activity, but the dominant theme appears to be neural development coordinated with vesicle trafficking and secretion essential for neuron maturation and synapse formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0090307","count":8},{"id":"GO:0008283","count":7},{"id":"GO:0090114","count":7},{"id":"GO:0007420","count":7}]},{"hash":"2264258320736673705","title":"Epigenetic Developmental Regulation","description":"Top terms center on chromatin remodeling and epigenetic marks (chromatin remodeling; DNA methylation; histone methylation) and span diverse differentiation processes (megakaryocyte, gonad, ureter, bile duct development). A metabolism-related term appears but is not dominant. This suggests a cluster of proteins involved in epigenetic control of differentiation programs, with some metabolic signaling context.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045654","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0072193","count":2}]},{"hash":"116819303593750357","title":"Cytokine production and secretory pathway organization","description":"The cluster is dominated by cytokine-related terms (IL-18 production, IL-1\u03b2 production, IL-2 regulation, type II interferon response) and by intracellular trafficking processes (Golgi/ER organization and ER membrane fusion), which together suggest a group involved in cytokine biosynthesis/secretion and immune signaling, with some potential neural-immune interactions reflected by related terms.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:0072616","count":6},{"id":"GO:1900041","count":6},{"id":"GO:0071346","count":6},{"id":"GO:0007030","count":6}]},{"hash":"376331854136944975","title":"Glycan and cell wall biosynthesis","description":"The cluster shows strong enrichment for biosynthesis of glycans and cell wall components (O antigen, lipopolysaccharide, fungal-type cell wall/mannoproteins, UDP-glucose\u2013dependent polysaccharide synthesis, glycogen), suggesting a shared role in assembling cell wall or extracellular polysaccharides across organisms; a single outlier term (mRNA export) does not override the primary theme.","confidence":"High","size":14,"edges":63,"triangles":133,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0009243","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0000032","count":2},{"id":"GO:1902758","count":2}]},{"hash":"2252762210738231298","title":"Cardiac Dopamine GPCR-cAMP Signaling","description":"This cluster is dominated by GO terms for dopamine receptor signaling via GPCRs that activate adenylate cyclase and cAMP pathways, along with related phospholipase C signaling and heart-related processes (positive regulation of blood pressure, heart development). The electron transport chain term suggests energy metabolism linked to cardiac function, reinforcing a cardiac GPCR-cAMP signaling theme. Confidence: High","confidence":"","size":14,"edges":6,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007190","count":11},{"id":"GO:0007191","count":10}]},{"hash":"270745463002464970","title":"Neural GPCR Signaling and Neurovascular Regulation","description":"This cluster centers on GPCR-driven adenylate cyclase signaling and ERK1/2 activation, which are core to neuronal communication. The presence of brain renin-angiotensin system terms and heart development/blood pressure links suggests a neurovascular regulatory theme, while almost hand-in-hand terms about responses to morphine and cocaine indicate neural reward pathways. A macrophage chemotaxis term appears peripheral but does not override the dominant neural/cardiovascular signal. ","confidence":"Medium","size":14,"edges":79,"triangles":243,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0010579","count":12}]},{"hash":"277889454151186361","title":"Ubiquitin-Dependent Proteolysis and Immune Signaling","description":"The top GO terms are dominated by ubiquitination and ubiquitin-dependent protein catabolism (including ERAD), with concurrent signals for apoptosis regulation and adaptive immune/TNF signaling, suggesting a cohesive cluster of proteins linked by the ubiquitin-proteasome system that modulates immune responses and cell death.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016567","count":9},{"id":"GO:0042787","count":8},{"id":"GO:1903721","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0070512","count":8}]},{"hash":"743832888355681810","title":"Neural and sensory organ development","description":"The cluster\u2019s terms cluster around nervous system development (axonal fasciculation, sympathetic neuron projection extension, sympathetic ganglion development) and sensory organ morphogenesis (cochlea morphogenesis, embryonic eye morphogenesis), with supporting proteolytic remodeling (proteolysis, plasminogen activation) and Hedgehog signaling regulation (positive regulation of smoothened). This suggests a cohesive theme of neural and sensory organ development with tissue remodeling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":4},{"id":"GO:0006508","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0048596","count":3},{"id":"GO:0003323","count":3}]},{"hash":"1989235593591966305","title":"Cytokine-driven inflammatory response","description":"The dominant GO terms point to cytokine-mediated signaling and inflammatory processes (cellular responses to TNF and IL-1, inflammatory response, monocyte activation) with supporting terms like cell-matrix adhesion and NFAT signaling, suggesting a cluster of proteins involved in immune activation and cytokine response. Some terms such as startle or locomotory behavior may reflect broader signaling roles, but the core function centers on inflammation and cytokine response.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071356","count":4},{"id":"GO:0007160","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0042117","count":3},{"id":"GO:0071347","count":3}]},{"hash":"2120034937277579957","title":"Innate Immune Signaling with Bone-Muscle Remodeling","description":"The top GO terms show innate immune pathways (NOD2 signaling, NF-kB-related regulation, and cytokine production like IL-6/IL-12) indicating inflammatory signaling. Additional terms touch on musculoskeletal aspects (ossification, cellular response to mechanical stimulus, response to muscle stretch) and vitamin D signaling, suggesting a cluster where immune signaling intertwines with bone and muscle remodeling. This combination justifies a label that captures both inflammation and musculoskeletal context.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":3},{"id":"GO:0006954","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0035994","count":2}]},{"hash":"814699493544467827","title":"TNF-driven inflammation and leukocyte trafficking","description":"This cluster centers on immune/inflammatory signaling: leukocyte migration, monocyte activation, and cellular responses to TNF, with accompanying integrin-mediated adhesion and VEGF-related vascular signaling. The inclusion of Notch processing suggests broader signaling crosstalk in immune contexts, but the dominant theme is TNF-associated inflammation and leukocyte movement.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002523","count":9},{"id":"GO:0007220","count":8},{"id":"GO:1900748","count":8},{"id":"GO:0034612","count":8},{"id":"GO:0030216","count":8}]},{"hash":"153268840826565484","title":"Unknown","description":"The top GO terms span insulin signaling regulation, various transport functions, RNA processing, stem cell maintenance, and developmental processes with no single unifying theme, indicating there is no coherent shared function to label this cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":2},{"id":"GO:0015699","count":1},{"id":"GO:0043251","count":1},{"id":"GO:0015700","count":1},{"id":"GO:0006849","count":1}]},{"hash":"2083414605431160403","title":"Unknown","description":"The top GO terms are diverse, spanning mitosis and transcription to autophagy (CVT pathway), TORC2 signaling, ubiquitin-mediated ERAD, development, skin, fertilization, spindle orientation, and GTPase regulation. With no cohesive, single functional theme and no edges linking proteins, a concise, representative label cannot be inferred.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0038203","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1170873894993651497","title":"Chromatin Silencing and Histone Deacetylation","description":"This cluster is dominated by GO terms for heterochromatin formation at multiple genomic contexts (subtelomeric, rDNA, mating-type cassettes) and for peptidyl-lysine deacetylation, pointing to chromatin silencing and histone deacetylase activity as the core theme. A few unrelated terms exist but do not outweigh the central chromatin regulation signal.","confidence":"High","size":13,"edges":74,"triangles":243,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034983","count":13},{"id":"GO:0006348","count":13},{"id":"GO:0045149","count":13},{"id":"GO:0030466","count":13},{"id":"GO:0000183","count":13}]},{"hash":"345141970362967721","title":"Multi-lineage cell differentiation","description":"The top GO terms center on differentiation and morphogenesis across a wide range of tissues and lineages (muscle, glial/astrocyte, adrenal chromaffin, pancreatic cells, inner ear receptor cells, stomatal development, umbilical cord), indicating a common theme of cell fate commitment rather than a single lineage.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0060415","count":13},{"id":"GO:2000820","count":13},{"id":"GO:0003329","count":13},{"id":"GO:2000763","count":13},{"id":"GO:0021781","count":13}]},{"hash":"2227646079884295019","title":"Cranial nerve axon guidance and sensory wiring","description":"The top terms cluster around neural development and pathfinding for cranial and peripheral nerves: branchiomotor and trigeminal neuron axon guidance, sympathetic neuron projection guidance and extension, axonal fasciculation, and semaphorin-plexin signaling. There is also a sensory perception term related to detecting mechanical stimuli (sound), supporting a theme of neural wiring for sensory pathways. A lone immune/complement term appears incidental. Overall, these terms point to a cohesive function in axon guidance and nerve organization in the peripheral nervous system.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":6},{"id":"GO:0014068","count":5},{"id":"GO:0021785","count":5},{"id":"GO:0097491","count":5},{"id":"GO:0007413","count":5}]},{"hash":"2147740528877195616","title":"Chromatin Silencing in Reproductive Development","description":"The leading terms emphasize chromatin-level transcriptional control (negative regulation of RNA Pol II, histone methylation, heterochromatin formation, silent mating-type cassette) and genome maintenance (2-micrometer plasmid partitioning), with additional development-related terms (gonad, brain, spermatogenesis, vitellogenesis, fertilization) that together suggest a cluster of proteins involved in chromatin-mediated regulation during development and reproductive processes.","confidence":"Medium","size":13,"edges":12,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0008584","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007338","count":7},{"id":"GO:0035023","count":6}]},{"hash":"2145754829806442479","title":"Embryogenesis and organ differentiation","description":"The top GO terms cluster around embryonic development and tissue/organ differentiation (endocardial cushion EMT, left-right pattern formation, cartilage morphogenesis, endocrine and pancreatic development, trophoblast and placenta differentiation). There are also cell cycle and telomere maintenance-related terms, suggesting a link to proliferation during development. Overall, the proteins appear to participate in broad developmental programs rather than a single pathway, justifying a label focused on embryogenesis and organ differentiation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1551974537580554001","title":"Eye and brain development","description":"These proteins cluster around developmental processes of the visual system and nervous system. The top GO terms emphasize retina and camera-type eye development, lens fiber differentiation, visual perception, forebrain/brain development, and broader multicellular organism development, suggesting roles in ocular and neural development. Some terms like single fertilization or prostate-related processes appear as outliers but do not override the overall theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007338","count":6},{"id":"GO:0070306","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0030900","count":5}]},{"hash":"1971911703639470205","title":"Nervous system development and myelination","description":"The top GO terms point to neural development and axon maturation: synapse organization, myelination, transmission of nerve impulses, and paranode localization of proteins, along with clustering of voltage-gated sodium channels\u2014key features of myelinated peripheral nerves. Although a few terms relate to immune signaling, the dominant pattern strongly reflects axonal organization and myelination processes, including Hedgehog pathway involvement and peripheral nervous system development. Overall, the cluster appears to group proteins involved in nervous system maturation and conduction.","confidence":"High","size":13,"edges":42,"triangles":62,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050808","count":7},{"id":"GO:0045162","count":7},{"id":"GO:0042552","count":7},{"id":"GO:0019226","count":7},{"id":"GO:0035745","count":7}]},{"hash":"2192895904046470967","title":"Nuclear transcription and signaling during stress","description":"The cluster shows enrichment for DNA-templated transcription and mitotic cell cycle, with terms related to nuclear transport and various signaling/stress responses (Wnt signaling, antibiotic response, amino acid starvation, innate immunity), suggesting a focus on nuclear gene regulation and stress signaling rather than a single pathway. ","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0090263","count":2},{"id":"GO:0046826","count":2}]},{"hash":"1929918954853140255","title":"Nervous system development and axon guidance","description":"These terms center on nervous system development, including neuron migration and axon guidance (Roundabout signaling, chemorepulsion, corpus callosum development, myelination, nervous system development, hedgehog/smoothened signaling). While a few terms touch on other organ development (kidney, heart) and ECM organization (collagen fibril), the dominant theme is neural development and axon guidance.","confidence":"High","size":13,"edges":13,"triangles":2,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0035385","count":7},{"id":"GO:0001525","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0042552","count":6},{"id":"GO:0030199","count":6}]},{"hash":"15724052027112935","title":"Vesicle trafficking and membrane remodeling","description":"The top GO terms cluster around vesicle trafficking and membrane dynamics (exocytosis, vacuole fusion, multivesicular body size, phospholipid homeostasis), with supporting signals from mating projection growth and axonogenesis that depend on membrane remodeling, plus mitochondrial outer membrane permeabilization, indicating broader membrane integrity processes.","confidence":"Medium","size":13,"edges":16,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:0051301","count":7},{"id":"GO:0032889","count":7},{"id":"GO:0050771","count":7}]},{"hash":"1026989827284260995","title":"Developmental signaling and innate immune responses","description":"The cluster mixes developmental signals (Hippo, Wnt), vascular/placental and epithelial differentiation (labyrinthine layer vascular development, placental development, keratinocyte differentiation), and innate immunity with apoptosis, suggesting proteins that coordinate tissue development with immune signaling and cell turnover.","confidence":"Medium","size":13,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060716","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0035329","count":7},{"id":"GO:0060044","count":7},{"id":"GO:0090263","count":7}]},{"hash":"2195506582327168770","title":"Ubiquitin-Driven Degradation & ERAD","description":"This cluster is strongly enriched for ubiquitin-related processes (ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD pathway, various ubiquitin linkages, and autoubiquitination) and linked to NF-kappaB signaling, indicating a cohesive function in protein quality control and degradation. Peroxisomal import and vitamin D response terms are present but appear ancillary to the dominant ubiquitination-driven proteostasis theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016558","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0085020","count":5}]},{"hash":"1405467601422202266","title":"RNA Processing and Ribosome Biogenesis","description":"This cluster is dominated by GO terms tied to rRNA maturation and processing (ITS1, LSU-rRNA), spliceosomal dynamics, and RNA metabolism, plus stress granule localization, pointing to a cohesive theme of RNA processing and ribosome assembly. A few outlier terms (viral replication, exploration behavior) are present but do not override the core RNA-centric signal.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019079","count":13},{"id":"GO:0000464","count":13},{"id":"GO:0043629","count":13},{"id":"GO:0000463","count":13},{"id":"GO:0035640","count":13}]},{"hash":"129239410189365834","title":"Unknown","description":"The top GO terms span mitotic cell cycle, neural development, calcium signaling, T cell receptor signaling, retinoic acid response, synaptic vesicle exocytosis, kidney development, fungal sporulation, xenobiotic response, and visual perception. This broad mix suggests no single cohesive biological theme for the cluster; rather it appears as a heterogeneous set of proteins with diverse roles. Therefore I cannot assign a specific, representative function name.","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0032526","count":3}]},{"hash":"1491536663810528817","title":"Innate immune cytokine signaling cluster","description":"The dominant GO terms center on innate immune response, inflammation, cytokine production and dendritic cell cytokine regulation, with NOD2 signaling and linked pathways such as CAMKK-AMPK and protein kinase regulation; an outlier term for dopamine receptor signaling may reflect cross-talk or annotation noise, but the overall theme is innate immune signaling and cytokine regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032755","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0070100","count":1},{"id":"GO:0006469","count":1},{"id":"GO:0045078","count":1}]},{"hash":"278192460215763418","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The top GO terms cluster around ribosome assembly and protein synthesis in the cytoplasm (cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis/export, tRNA modification). The presence of cell cycle/division terms likely reflects growth processes coordinated with ribosome production, but the core signal is ribosome/translation machinery. Overall, this label captures the main functional theme of the cluster.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0042274","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000747","count":2}]},{"hash":"94595070941640511","title":"Post-transcriptional gene expression regulation","description":"This cluster centers on splicing regulation, mRNA export, and translation initiation/regulation, including spliceosome-related processes, translation preinitiation complex formation, IRES-dependent initiation, mRNA stability in stress, and miRNA-mediated translational silencing\u2014together reflecting post-transcriptional control of gene expression.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006446","count":4}]},{"hash":"867536366071634045","title":"Immune Response and Cytoskeletal Dynamics","description":"Top terms point to immune processes (adaptive/innate, phagocytosis) co-occurring with cytoskeletal/membrane trafficking events (actin branching, cortical patches, endocytosis, cell migration, tight junction assembly). This suggests a theme of immune cells engaging in cargo uptake and movement guided by actin remodeling, despite some broader developmental terms present. Therefore, the label captures the core shared function of the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070830","count":6},{"id":"GO:0002250","count":5},{"id":"GO:0006909","count":5},{"id":"GO:0048666","count":5},{"id":"GO:0072584","count":4}]},{"hash":"1225728696850279331","title":"Actin Remodeling at Neuromuscular Junctions","description":"This cluster centers on actin cytoskeleton dynamics (actin nucleation and Arp2/3), dendritic spine morphogenesis, and subsynaptic reticulum organization, with supporting terms for skeletal muscle contraction, suggesting actin remodeling functions at neuromuscular junctions and related development.","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0035584","count":4},{"id":"GO:2000601","count":4},{"id":"GO:1990255","count":3},{"id":"GO:0045010","count":3}]},{"hash":"1365829286179449549","title":"Ribosome and translation machinery","description":"This cluster is dominated by translation-related GO terms, especially translation (GO:0006412) with 8 proteins, plus ribosomal large subunit assembly (GO:0000027) and regulation of translational fidelity (GO:0006450). A few terms reference mitochondria or signaling and appear as older annotations, but the prominent, shared functions point to components of the ribosome and protein synthesis machinery.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0010259","count":1},{"id":"GO:0070584","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0061458","count":1}]},{"hash":"259675884503960403","title":"Neural development and synaptic plasticity","description":"This cluster is enriched for neural development and synaptic function terms: memory and long-term potentiation; Schwann cell development and peripheral nervous system myelination; calcium ion detection; and calcium-dependent signaling modulators. Although some generic cell-cycle terms appear, the prominent neural-related GO terms suggest a cohesive theme around nervous system development and synaptic plasticity.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0022011","count":3}]},{"hash":"1355559133095016463","title":"Vesicle trafficking and polarity signaling","description":"The top GO terms cluster around intracellular transport routes (cytoplasm to vacuole targeting via the Cvt pathway, early endosome to Golgi transport, and transmembrane transport) and the regulation of cell polarity and cytoskeleton (filopodium assembly, Rac signaling, ERK cascade, polarity establishment). This points to a cohesive theme of vesicle trafficking paired with signaling that governs polarity and cytoskeletal dynamics, even though some terms are from different contexts (e.g., GABAergic signaling). Overall, a vesicle transport and polarity-regulatory theme fits best.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":3},{"id":"GO:0032258","count":2},{"id":"GO:0016601","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0046847","count":2}]},{"hash":"2219227221600052764","title":"Organogenesis and muscle-heart development","description":"The cluster is enriched for developmental processes, including multicellular organism development, skeletal and heart development, myoblast fusion, angiogenesis, and forebrain development, plus transcriptional and cell-cycle activities. While a few terms like defense response appear, the dominant signal ties to organogenesis and differentiation of muscle, heart, and vascular/brain tissues.","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0006351","count":6}]},{"hash":"325427536375789241","title":"Unknown","description":"GO terms span meiotic/chromatin/nuclear pore processes, TORC1 signaling, ciliogenesis, synaptic vesicle dynamics, neurotransmitter receptor trafficking, pigment biosynthesis, and tRNA gene clustering, covering nuclear, signaling, neuronal, and metabolic roles. There is no clear, single function tying all proteins together, so Unknown.","confidence":"","size":13,"edges":11,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009556","count":2},{"id":"GO:0070058","count":2},{"id":"GO:0007143","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0048499","count":2}]},{"hash":"1540941517700083595","title":"Gland development and cell cycle regulation","description":"Top GO terms indicate transcriptional activity and tight cell-cycle control, including DNA-templated transcription, G1/S and G2/M transitions, and chromosome condensation via histone phosphorylation, alongside mammary gland alveolus development and Leydig cell differentiation. The presence of insulin signaling regulation and magnesium ion response suggests broader hormonal and metabolic regulation that supports proliferation and differentiation. This points to a cohesive module tying transcriptional regulation, cell-cycle progression, and gland development signals.","confidence":"High","size":13,"edges":66,"triangles":174,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0046626","count":7},{"id":"GO:0033598","count":7},{"id":"GO:0000082","count":7},{"id":"GO:2000775","count":7}]},{"hash":"1959621504282570352","title":"Ribosome Biogenesis and Translation Initiation","description":"The top terms cluster around ribosome assembly and rRNA processing (ribosome biogenesis, SSU-rRNA maturation) and translation initiation/reinitiation (including IRES-dependent and viral translation), indicating a group of proteins tied to ribosome production and the initiation of protein synthesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0000447","count":4}]},{"hash":"2295122474975017044","title":"Regulated signaling and transport processes","description":"This cluster groups proteins involved in controlling signaling pathways (e.g., GTPase activity), nuclear import, proteasome localization, and various intracellular transport/trafficking events, as well as regulators of calcium signaling and apoptosis. The terms span regulatory controls rather than a single pathway, suggesting a theme of general cellular signaling and trafficking regulation, with some developmental and host-interaction associations as peripheral aspects.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0060789","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0031144","count":3}]},{"hash":"216140877904793430","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000472","count":7},{"id":"GO:0000447","count":7},{"id":"GO:0000480","count":7},{"id":"GO:0006351","count":5},{"id":"GO:0050830","count":5}]},{"hash":"2115018814332918026","title":"Cytoskeletal dynamics and cellular stress responses","description":"This cluster is enriched for terms tied to cytoskeletal remodeling (actin polymerization, dendritic spine morphogenesis, keratinization) and stress-related regulation (stress granule assembly, apoptosis, contact inhibition), plus related organelle dynamics (vacuole inheritance) and signaling. The terms collectively point to structural remodeling coupled with cellular stress and growth control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0060244","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0035376","count":1},{"id":"GO:0000011","count":1}]},{"hash":"770701887550853420","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":37,"triangles":49,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0036018","count":3},{"id":"GO:0071456","count":3}]},{"hash":"776960496213303003","title":"Neural synapse formation and development","description":"The top GO terms center on synapse assembly and postsynaptic organization (heterophilic cell\u2013cell adhesion, neuroligin clustering, postsynaptic membrane assembly, synapse assembly, positive regulation of synapse formation) and neural development (nephron/tract morphogenesis, neuronal stem cell maintenance). While a few terms touch on non-neural processes like hair polarity or endocardial cushion migration, the dominant signal is neural connectivity and synapse formation, suggesting proteins function together in establishing neural networks.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0072006","count":5},{"id":"GO:0097118","count":4},{"id":"GO:0060122","count":4},{"id":"GO:0051965","count":4}]},{"hash":"541170287955105576","title":"Broad Metabolic Biosynthesis and Xenobiotic Response","description":"The Top Terms show a mix of primary metabolism (pyruvate, glutamate/GABA, tryptophan/serotonin) and secondary metabolite pathways (isoquinoline alkaloids, phytoalexins), plus pigmentation regulation and cellular response to xenobiotics. This pattern points to a cluster enriched for diverse metabolic processes and defense-related responses rather than a single clear pathway, supporting a metabolism-centered label.","confidence":"Medium","size":13,"edges":55,"triangles":117,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":5},{"id":"GO:0033076","count":4},{"id":"GO:0001553","count":4},{"id":"GO:0006587","count":4},{"id":"GO:0006538","count":4}]},{"hash":"958718887609083386","title":"Immune signaling regulators","description":"The top GO terms point to both adaptive (T cell receptor signaling) and innate (TLR7, NOD2) immune pathways, with regulation of MAPK/ERK cascades, and links to cellular stress responses (UPR) and ubiquitin-mediated sorting. This suggests a cluster of proteins that modulate immune signaling across pathways and connect signaling with protein quality control, hence the label \"Immune signaling regulators.\"","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0070373","count":11},{"id":"GO:0034157","count":8},{"id":"GO:0098902","count":8}]},{"hash":"2302450147669267709","title":"Immune Activation and Endothelial Development","description":"Based on GO terms, the cluster centers on immune activation processes: complement activation (classical pathway), T cell costimulation and proliferation, and immunoglobulin production. Endothelial cell morphogenesis and Hedgehog-related signaling suggest concurrent vascular/developmental roles, so the proteins may participate in immune responses with vascular developmental cues. Some terms are obsolete, but the dominant theme is immune response with vascular development signals.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0006958","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0001886","count":3},{"id":"GO:0002377","count":3}]},{"hash":"457429393694518324","title":"Craniofacial and neural development regulators","description":"The top GO terms are dominated by embryonic development and neural/craniofacial structures (roof of mouth development, midbrain development, trigeminal ganglion development, pituitary gland development, somite axis specification), with an additional signal of transcriptional regulation. This pattern suggests the cluster groups proteins involved in regulating development of neural and craniofacial tissues, rather than a single tight biochemical function. Although there are some immune-related terms (complement activation, phagolysosome assembly), the development-centric terms are the prevailing theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0007338","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0033623","count":3},{"id":"GO:0001845","count":3}]},{"hash":"240631636937604411","title":"Proteostasis and Mitochondrial Quality Control","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent ERAD, deubiquitination, autoubiquitination), along with aggresome formation, mitophagy, and regulation of mitochondrial fusion, indicating a core role in protein quality control and mitochondria maintenance. This suggests coordinated handling of misfolded/damaged proteins and mitochondria under cellular stress.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:1904049","count":6},{"id":"GO:1905366","count":6},{"id":"GO:0016579","count":6},{"id":"GO:0070842","count":6}]},{"hash":"2265998669961918447","title":"Neurodevelopmental Signaling","description":"This cluster is dominated by GO terms tied to neural development: CNS neuron development, cerebellum development, and orbitofrontal cortex development, along with FGFR signaling and caveolin-mediated endocytosis which relate to signaling and membrane trafficking in developing neurons. The presence of lens development and immune-related signaling (IL-1 pathway, NK cell differentiation) suggests broader developmental and signaling roles, but the strongest common theme remains neural development and its associated signaling processes.","confidence":"Medium","size":13,"edges":69,"triangles":201,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":13},{"id":"GO:0002088","count":13},{"id":"GO:0021954","count":13},{"id":"GO:0033160","count":13},{"id":"GO:0016477","count":13}]},{"hash":"97669405971044671","title":"Immune activation and vascular morphogenesis","description":"This cluster mixes immune signaling components (negative regulation of NK cell chemotaxis, basophil activation, Fc-gamma receptor signaling, platelet activation as part of inflammation) with tissue/vascular morphogenesis terms (lymph vessel morphogenesis, metanephric tubule development). The shared theme appears to be immune/inflammatory signaling linked to vascular and organ development, though no single, tight function dominates. ","confidence":"Medium","size":13,"edges":65,"triangles":173,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":12},{"id":"GO:0010572","count":12},{"id":"GO:0071226","count":12},{"id":"GO:0072287","count":11},{"id":"GO:0036303","count":11}]},{"hash":"388187372409828514","title":"Mitotic spindle dynamics & chromosome segregation","description":"The GO terms cluster around core mitotic processes: cell division, centromere/chromatid assembly and biorientation, spindle-related microtubule dynamics (including severing), and septin ring organization/disassembly involved in cytokinesis, plus cell cycle\u2013related dephosphorylation. A scattered ERAD/ER-Golgi term appears, but the dominant pattern points to mitosis and cytokinesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006888","count":3}]},{"hash":"481261584651376816","title":"Craniofacial and sensory organ morphogenesis","description":"The top GO terms cluster around development of head-associated structures\u2014optic cup, face, inner ear, and related glands\u2014reflecting craniofacial and sensory organ morphogenesis.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0002072","count":13},{"id":"GO:0032180","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0009954","count":13},{"id":"GO:0019545","count":13}]},{"hash":"375059269581497921","title":"Developmental and RNA splicing cluster","description":"The top GO terms show strong representation of mRNA splicing via spliceosome, alongside multiple tissue development terms (uterus, roof of mouth, cochlea morphogenesis, cartilage). This suggests the proteins cluster around RNA processing activities with roles in developmental processes, with additional signals for stress/inflammatory and apoptotic pathways as supporting themes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0060065","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0051216","count":3}]},{"hash":"627811131499908202","title":"Ubiquitin-proteasome proteostasis and stress signaling","description":"The cluster\u2019s top GO terms center on ubiquitin-related protein turnover (deubiquitination, SCF-dependent ubiquitin-proteasome catabolic process) and general proteostasis, while stress-related terms (response to zinc/cadmium, salt stress) indicate metal- and osmotic-stress signaling. Additional GO terms for T cell receptor and TNF signaling, plus regulation of mRNA stability and Wnt signaling, suggest broader involvement in signaling networks, but the strongest cohesive theme is ubiquitin-mediated proteolysis coupled to cellular stress responses.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:0010043","count":5},{"id":"GO:0010950","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0009651","count":5}]},{"hash":"165533177349669593","title":"Phosphoinositide Signaling and Endocytosis Regulation","description":"The top GO terms cluster around phosphoinositide signaling (inositol trisphosphate biosynthesis; phosphatidylinositol-mediated signaling; PI3K-related pathway) and endocytosis/phagocytosis regulation (positive regulation of receptor-mediated endocytosis; regulation of phagocytosis), with supporting terms on intracellular transport and lipid metabolism. This suggests a cohesive theme of PI-driven signaling coordinating vesicular trafficking and uptake.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046580","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0048260","count":3},{"id":"GO:0032959","count":3},{"id":"GO:0006886","count":3}]},{"hash":"81077000329506864","title":"Cytoskeletal dynamics and tissue morphogenesis","description":"The top GO terms emphasize cytoskeletal regulation (Rho signaling, mitotic spindle assembly, sarcomere organization) and morphogenesis of epithelium, pointing to a module of structural dynamics that shape cells and tissues. Additional terms like secretion and ion transport suggest broader signaling roles in remodeling, but the core theme remains cytoskeletal-driven development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0010043","count":2},{"id":"GO:0002009","count":2}]},{"hash":"637181809189054920","title":"Innate Immune Signaling and Ion Channel Regulation","description":"The terms cluster around innate immune response and multiple signaling pathways (STAT tyrosine phosphorylation, Rho signaling, PI3K activity), with supporting notes on IL-2 production and ion-channel-related processes (sodium channel clustering and sodium transport). There are also developmental terms (heart development) that may reflect broader roles of these signaling networks. Overall, the dominant theme appears to be innate immune signaling intertwined with cellular signaling and ion-channel regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0042523","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0051965","count":4}]},{"hash":"1596349113075068417","title":"Bone development with immune regulation","description":"The top GO terms point to ossification and multicellular development as core themes, with substantial signals for immune modulation (innate immunity, macrophage, NK, and cytotoxic T cell regulation), together with cell adhesion and angiogenesis. The presence of nervous-system related terms (transmission of nerve impulse, paranodal junction assembly) suggests coordinated tissue development and remodeling. Overall, the cluster seems to reflect a group of proteins involved in bone formation linked to immune signaling and tissue organization, aligning with osteoimmunology concepts.","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0043031","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0045087","count":4}]},{"hash":"464908042458470462","title":"Complement regulation and cell adhesion","description":"This cluster centers on immune/modulatory functions related to the complement system, including classical pathway activation, MAC activation, and negative regulation of complement (alternative pathway), along with processes of cell adhesion (cell-cell and cell-matrix). The presence of IL-10 production supports immune regulation, while the adhesion terms tie to tissue interactions. A few terms (vocalization behavior, embryonic development, smooth muscle apoptotic regulation) appear peripheral or context-dependent, but do not dominate the theme. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007157","count":6},{"id":"GO:0032613","count":5},{"id":"GO:0071625","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0060244","count":4}]},{"hash":"2152290185556301231","title":"Neural Visual Perception and Drug Response","description":"The terms point to neural sensory processing (visual perception/learning) and associated signaling (ERK cascade, GTPase regulation), plus drug response behaviors (morphine, cocaine) and brain signaling systems (brain renin\u2013angiotensin system, prostaglandin response). Although a heart-development term appears, the strongest signal is neural vision-related processing and signaling related to drug responsiveness.","confidence":"High","size":13,"edges":63,"triangles":152,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0002035","count":10},{"id":"GO:0043278","count":10}]},{"hash":"640228954000218397","title":"Neuronal GPCR-cAMP and Rho Signaling","description":"The dominant GO terms center on GPCR pathways that activate adenylate cyclase and regulate GTPases (Rho), i.e., cAMP signaling and Rho-mediated signaling, which are key to neural signaling and learning processes (visual learning, operant conditioning). Some terms like IL-8 production or blood pressure indicate broader signaling roles, but the core theme is neural GPCR-cAMP-Rho signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0040015","count":6},{"id":"GO:0035025","count":6}]},{"hash":"131361327280463353","title":"Podosome and Filopodium Assembly in Migration","description":"Dominant terms describe actin-based protrusions and cytoskeletal remodeling (podosome and filopodium assembly, actin filament bundle assembly) and their role in cell migration. Signaling pathways regulating these processes (Rho, JNK, TGF-beta) support dynamic cytoskeleton changes. A B cell receptor signaling term appears but does not define the cluster's main function; the shared theme is adhesion-related protrusions driving migration.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0071560","count":3}]},{"hash":"1894458983202764601","title":"Neural and sensory development with cytoskeletal regulation","description":"The terms point to neural and sensory organ development (dorsal motor nucleus vagus development, compound eye photoreceptor differentiation, equilibrioception, synapse plasticity) and to cytoskeletal dynamics and adhesion (Rho signaling, stress fiber assembly, integrin-mediated adhesion). While bone and heart development are present, the prevailing theme is morphogenesis in neural/sensory contexts driven by cytoskeletal remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030500","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0021744","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0033628","count":2}]},{"hash":"2024292418783931857","title":"Vascular and skeletal development with ECM adhesion","description":"Based on the top GO terms, the cluster centers on processes like aorta development, bone trabecula formation, and blood coagulation, together with cell adhesion and extracellular matrix interactions. While some terms are obsolete, the common thread suggests proteins involved in connective tissue remodeling during vascular and skeletal development, with adhesion and ECM signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0098869","count":4},{"id":"GO:0006212","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0060346","count":3}]},{"hash":"1265925968758190298","title":"Nociception and pain signaling","description":"The top GO terms are dominated by response to pain and detection of chemical stimuli involved in sensory perception of pain, indicating a core theme around nociceptive signaling. Other terms like cell migration, cell growth, lipid metabolism, and telomere-related processes appear ancillary or incidental, suggesting mixed or pleiotropic associations rather than a single cohesive function for the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048265","count":10},{"id":"GO:0045444","count":9},{"id":"GO:0035508","count":9},{"id":"GO:0016477","count":9},{"id":"GO:0046475","count":9}]},{"hash":"1945061409700149049","title":"DNA replication, repair, and transcription","description":"Cluster proteins are predominantly tied to genome maintenance: DNA replication, DNA repair, DNA-templated transcription, and mitotic cell cycle, indicating a genome maintenance module. Some terms (endocytosis and lens/CNS development) appear but are less representative and may reflect multifunctionality or annotation noise.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006281","count":13},{"id":"GO:0006351","count":13},{"id":"GO:0000278","count":13},{"id":"GO:0006260","count":13},{"id":"GO:0072584","count":12}]},{"hash":"1697628937646991025","title":"Innate immune signaling and vesicle trafficking","description":"The top GO terms cluster around antiviral defense and intracellular transport, including innate immune response, defense against virus, endosome-to-lysosome transport, and GPCR catabolic process; these point to immune signaling connected to vesicular trafficking. Some terms (mitochondrial depolarization, dendritic spine morphogenesis, cell migration, nuclear import) are more general or context-specific and may reflect broader cellular stress or signaling roles, but overall the dominant theme is immune-related signaling with vesicle trafficking.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051901","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1334747030770262535","title":"MAPK signaling with neural and immune roles","description":"This cluster is dominated by terms about positive regulation of MAPK cascades (ERK1/2, JNK), along with neural development (axon extension, nervous system development) and immune signaling (T cell receptor signaling, mast cell degranulation). The recurring emphasis on signaling pathway regulation, combined with neural and immune-related processes, points to proteins involved in broader MAPK-mediated signaling that influences both nervous system development and immune responses, with some cytoskeletal regulation as supporting context.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":12},{"id":"GO:0031532","count":12},{"id":"GO:0043552","count":12},{"id":"GO:0045773","count":12},{"id":"GO:0050852","count":12}]},{"hash":"1727999631414175476","title":"Neuronal signaling and nervous system structure","description":"The top GO terms cluster around nervous system activity and development\u2014neuronal action potential, membrane hyperpolarization, optic nerve structural organization, and globus pallidus development\u2014suggesting a focus on neural signaling and neural tissue organization. While some terms pertain to general cellular signaling and Golgi maintenance, the strongest signal is neural function, giving a coherent theme for this cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":2},{"id":"GO:0051684","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0021633","count":1},{"id":"GO:0043149","count":1}]},{"hash":"2032568098683590112","title":"MAPK Signaling: ERK and p38 Cascades","description":"This cluster is dominated by GO terms for the ERK1/ERK2 cascade and the p38MAPK cascade, with multiple entries for cellular responses to growth-factor\u2013related stimuli (e.g., FGF, GM-CSF, prostaglandin) and other cues (glucose, cocaine). The addition of development and proliferation regulation terms suggests a coherent theme around MAPK signaling and downstream responses to diverse extracellular signals.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0042220","count":3},{"id":"GO:1904628","count":2}]},{"hash":"1723483870494136802","title":"Mitotic cell cycle and APC-dependent ubiquitination","description":"Several top GO terms converge on mitosis and cell division (mitotic cell cycle, anaphase-promoting complex-dependent catabolic process) and ubiquitin signaling (K11-linked ubiquitination) with interplay in phosphorylation regulation. This suggests a cohesive set of proteins coordinating mitotic progression through ubiquitin-mediated turnover and signaling, with some additional nutrient response signals. Thus, the label reflects the dominant themes of cell division and ubiquitin regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001162","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0031954","count":2}]},{"hash":"459745908127320936","title":"Unknown","description":"The proteins show a dispersed mix of GO terms, including cAMP signaling, mitotic nuclear envelope dynamics, DNA integration, oocyte chromatin processes, viral genome regulation, and redox activity, with no clear shared function tying them together. The lack of relational context (edges) and the absence of a cohesive theme support labeling this cluster Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":2},{"id":"GO:0075713","count":1},{"id":"GO:0045071","count":1},{"id":"GO:0007084","count":1},{"id":"GO:0007077","count":1}]},{"hash":"646313535242643293","title":"Embryonic organogenesis and neural differentiation","description":"This cluster centers on embryonic development and tissue differentiation, with strong emphasis on neural lineage specification (cerebral cortex interneurons, spinal cord motor neurons, oligodendrocyte fate) and neural crest migration, alongside broader organogenesis processes (endocrine pancreas development, bronchiole development, digestive tract morphogenesis) and transcription regulation during development.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":10},{"id":"GO:0006366","count":9},{"id":"GO:0021892","count":8},{"id":"GO:0021520","count":8},{"id":"GO:0021530","count":8}]},{"hash":"1727402704357362678","title":"Embryogenesis and early developmental signaling","description":"This cluster centers on developmental processes from embryonic stages (in utero development) to reproductive maturation (ovarian follicle initiation) and tissue remodeling (EMT regulation), with concurrent immune and hormonal signaling (T cell proliferation in thymus, IL-2 regulation, estrogen receptor pathways) and cell proliferation (DNA replication initiation). The shared thread is broad developmental signaling across embryonic to early life stages, encompassing both reproductive and immune aspects.","confidence":"High","size":12,"edges":61,"triangles":177,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":11},{"id":"GO:0033092","count":11},{"id":"GO:0003146","count":7},{"id":"GO:0045085","count":7},{"id":"GO:0032792","count":7}]},{"hash":"1807337802211149781","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":16,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:1902987","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0019835","count":2}]},{"hash":"1715268839406310297","title":"Embryonic organogenesis regulators","description":"GO terms point to embryonic development and organogenesis across diverse tissues (skeletal system, heart, placenta, hindlimb, retina guidance, inner ear). The presence of transcriptional regulation by RNA Pol II suggests these proteins may act as regulators coordinating these developmental programs rather than a single tissue-specific function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0048706","count":4},{"id":"GO:0031290","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0035116","count":3}]},{"hash":"1954124240703232725","title":"Dopaminergic Neuron Development and Synaptic Plasticity","description":"The cluster is strongly linked to dopaminergic biology, with terms like substantia nigra development and positive regulation of dopamine receptor signaling, plus regulation of long-term neuronal synaptic plasticity, pointing to a focus on dopaminergic neuron development and synaptic function. Some other GO terms touch on endothelial barrier or lysosomal processes, but the dominant theme centers on dopaminergic signaling and neuronal maturation.","confidence":"Medium","size":12,"edges":47,"triangles":90,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033144","count":9},{"id":"GO:1900026","count":9},{"id":"GO:0061028","count":9},{"id":"GO:0048169","count":9},{"id":"GO:0021762","count":9}]},{"hash":"1254188528147729587","title":"Neural sensory perception and learning","description":"Top GO terms cluster around nervous system functions: retina development and visual learning suggest vision-related processing, while terms for sensory perception of pain and its regulation indicate nociceptive processing; temperature stimulus response aligns with neural environmental sensing. Included signaling terms (adenylate cyclase activation, PLC-activating serotonin receptor signaling) reflect neural signal transduction. A few terms (diet-induced thermogenesis, IL-8 production) are more peripheral but do not override the central theme. Overall, the cluster seems to group proteins involved in neural sensory processing and learning.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":4},{"id":"GO:0051930","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4}]},{"hash":"603240124648272369","title":"Developmental Signaling and Neurogenesis","description":"This cluster is enriched for signaling pathways involved in development and neural patterning, including STAT tyrosine phosphorylation, PI3K/AKT signaling, T cell receptor signaling, and SHH/ROBO-related routes, with manifestations in neurogenesis, nervous system development, and organogenesis (kidney and vagina). The common thread is signaling-driven cell proliferation and tissue development across multiple lineages, especially neural contexts.","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":8},{"id":"GO:0043491","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0022008","count":7},{"id":"GO:0008284","count":7}]},{"hash":"626288128322515408","title":"Developmental signaling and cell migration","description":"The top GO terms cluster around signaling pathways (Rho, MAPK, TGF-beta) and processes involving movement and formation (myoblast fusion, forebrain cell migration, neurogenesis). Supporting membrane dynamics (endocytosis regulation, plasma membrane repair) point to coordinated remodeling essential for development. NK differentiation hints at broader developmental contexts, but the unifying theme is signaling-driven cellular migration and differentiation.","confidence":"Medium","size":12,"edges":60,"triangles":167,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0007520","count":8},{"id":"GO:0048260","count":7},{"id":"GO:0001778","count":6},{"id":"GO:0021885","count":6}]},{"hash":"247224789165557832","title":"ER protein folding and quality control","description":"The dominant GO terms point to ER-based protein folding, redox balance, unfolded protein response, and regulation of trafficking, all core aspects of ER proteostasis and quality control under stress.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034975","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0046825","count":4},{"id":"GO:0051259","count":3}]},{"hash":"1939322367006257144","title":"Unknown","description":"The top GO terms span inflammatory responses (lipopolysaccharide response, IL-6 production, inflammatory regulation) and diverse developmental/metabolic processes (uterus/vagina/heart development, insulin signaling, cholesterol homeostasis), with no clear, single functional theme connecting all proteins. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0060065","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0050729","count":2},{"id":"GO:0042632","count":2}]},{"hash":"734929217014122748","title":"Neural signaling and sensory processing","description":"This cluster centers on neural function: visual learning and visual perception, brain renin-angiotensin system, ERK1/ERK2 signaling, and protein phosphorylation, together with behavioral responses to morphine and cocaine. The inclusion of vascular regulation terms (vasoconstriction, brain RAS) and macrophage chemotaxis suggests ancillary roles in brain inflammation and blood flow. Overall, the common thread is neuronal signaling, synaptic modulation, and sensory/behavioral processing rather than general metabolism, so the label neural signaling and sensory processing fits well.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0045907","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0002035","count":10}]},{"hash":"1144706394768243135","title":"Neural development and calcium signaling","description":"The top terms cluster around neural development (astrocyte differentiation, axonogenesis, memory) and calcium signaling (positive regulation of voltage-gated calcium channel activity). While transcriptional regulation and protein complex formation appear, the dominant theme is neural differentiation and calcium-mediated signaling in neural contexts.","confidence":"High","size":12,"edges":54,"triangles":156,"max_degree":10,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0051290","count":11},{"id":"GO:0006919","count":7},{"id":"GO:0007613","count":7},{"id":"GO:0051597","count":7}]},{"hash":"1080347632824440645","title":"Neural development and calcium signaling","description":"Rich in brain development, neurotransmitter secretion, and store-operated calcium signaling terms, plus Rho/GTPase regulation and chromatin remodeling. Together they suggest neural development with calcium-dependent signaling and activity-regulated gene expression.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0032237","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0007343","count":3}]},{"hash":"1057059604747915952","title":"Cytoskeleton Dynamics and Cell Division","description":"The top GO terms cluster around actin cytoskeleton remodeling (Arp2/3-mediated actin nucleation; actin cortical patch localization) and processes tied to cytoskeletal functions such as phagolysosome assembly and mitotic spindle formation. A few terms are obsolete histone modification annotations, likely noise. Overall, the proteins appear linked by roles in cytoskeleton organization and cell division, making this an appropriate concise label.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":4},{"id":"GO:0034314","count":4},{"id":"GO:0043982","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0001845","count":3}]},{"hash":"1332653282277712776","title":"Nucleolar RNA Processing and Ribosome Biogenesis","description":"The top terms converge on RNA processing events, especially mRNA splicing via the spliceosome and regulatory ncRNA\u2013mediated gene silencing, along with rRNA maturation and transcription in the nucleolus (ITS1 cleavage, SSU-rRNA maturation, RNA Pol I transcription). While there is also a broad cell-cycle and transcription initiation signal, the strongest shared theme across the terms is RNA maturation and ribosome biogenesis in the nucleolus. Therefore this name captures the cluster\u2019s central function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0006367","count":2}]},{"hash":"878826124983198838","title":"Neuroimmune Development and Synaptic Wiring","description":"The cluster shows strong neural development themes (myelination, axonal fasciculation, synapse assembly, dopamine signaling) alongside innate immune activity (innate immune response, interferon production, chemokine signaling modulation), suggesting a module where neural wiring is coordinated with immune signaling. This pattern may reflect neuroimmune interactions during development or sensory system maturation (otolith morphogenesis). Hence the name captures both neural developmental processes and immune regulation that appear linked in this set.","confidence":"Medium","size":12,"edges":15,"triangles":4,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0042552","count":6},{"id":"GO:0032474","count":6},{"id":"GO:0007413","count":6}]},{"hash":"1729961696631451397","title":"Cytoskeletal remodeling and migration during differentiation","description":"These proteins cluster around cytoskeletal dynamics\u2014actin filament bundle assembly and spindle assembly\u2014tied to cell migration and establishment of polarity, all characteristic of differentiation-related remodeling. Ubiquitin/proteasome\u2013mediated regulation suggests proteostasis control during these processes. While one term points to trophoblast giant cell differentiation, the shared theme is differentiation-associated cytoskeletal reorganization and movement, with proteolytic regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0051017","count":3}]},{"hash":"1453670967247787237","title":"Cytoskeletal signaling and cell migration","description":"The top GO terms point to actin cytoskeleton dynamics (actin filament branching, actin cortical patch assembly), Rac-mediated signaling, and processes related to cell movement (cell migration, positive regulation of ruffle assembly). Ephrin receptor signaling and T cell receptor signaling suggest broader cell signaling cross-talk that can influence cytoskeletal remodeling, while caveolin-mediated endocytosis touches on membrane trafficking linked to actin dynamics. Taken together, the cluster seems centered on signaling pathways that regulate actin remodeling and migratory behavior, with some immune/developmental context. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":3},{"id":"GO:0072584","count":2},{"id":"GO:0090135","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1022785819359469569","title":"Developmental morphogenesis and actin dynamics","description":"The terms emphasize organ/tissue development (bone, kidney, hair follicle morphogenesis, otic vesicle formation, spermatogenesis) and cytoskeletal processes (actin filament branching, filopodium assembly, Rac signaling). This pattern suggests the proteins cooperate in developmental morphogenesis with actin-driven cell shape changes and movement, justifying this label.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0030916","count":3},{"id":"GO:0031069","count":3}]},{"hash":"1665917650768556689","title":"Opsin signaling and GPCR endocytosis","description":"The terms point to opsin-mediated GPCR signaling, GPCR internalization via clathrin, visual perception, and MAPK signaling, suggesting a cohesive cluster of proteins involved in visual GPCR signaling and receptor trafficking; placental/development terms appear less connected.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0060137","count":3},{"id":"GO:0001893","count":3}]},{"hash":"944093755357415070","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0002250","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0097350","count":2},{"id":"GO:0046677","count":1}]},{"hash":"1582920984458408898","title":"RNA processing and translational regulation","description":"Based on the top GO terms, the proteins are enriched for translation initiation and reinitiation processes (translation reinitiation, preinitiation complex formation, IRES-dependent initiation, and regulation of translational initiation). In addition, several terms relate to RNA processing steps in the spliceosome and mRNA splicing regulation, plus RNA stability and miRNA-mediated silencing, indicating a theme of RNA maturation and its control of gene expression at the translational level.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0075522","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0006446","count":5}]},{"hash":"1657827866153092201","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":53,"triangles":117,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0034475","count":6},{"id":"GO:0071038","count":6},{"id":"GO:0034476","count":6},{"id":"GO:0000464","count":6},{"id":"GO:0048026","count":6}]},{"hash":"203055186571160689","title":"Developmental Morphogenesis and Cell Dynamics","description":"The top GO terms point to tissue and organ development (kidney morphogenesis, papilla formation, CNS vasculogenesis) together with processes tied to cell movement, calcium-dependent adhesion, cytoskeletal regulation, and chromatin remodeling. While some terms (meiotic division, heart-rate regulation) are broader, the shared theme is developmental morphogenesis guided by cell adhesion, migration, and structural remodeling, suggesting a cluster of proteins involved in developmental tissue formation and cell dynamics.","confidence":"Medium","size":12,"edges":52,"triangles":106,"max_degree":11,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007143","count":8},{"id":"GO:0032467","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0061198","count":6},{"id":"GO:0003338","count":6}]},{"hash":"1394276785771433047","title":"Mitotic cell division and APC/C-dependent processes","description":"The dominant terms are cell division, mitotic cell cycle, and anaphase-promoting complex-dependent catabolic process, pointing to mitosis and APC/C-driven regulation as the core theme of this cluster. Some RNA processing terms appear but likely reflect housekeeping roles of these proteins rather than defining the cluster. ","confidence":"High","size":12,"edges":16,"triangles":9,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0000398","count":4}]},{"hash":"234382424081534353","title":"Immune signaling and cell migration regulation","description":"These proteins are enriched for activation of signaling pathways (ERK/MAPK and STAT), responses to growth factors (TGF-\u03b2, insulin, retinoic acid), calcium mobilization, and immune cell movement (neutrophil chemotaxis, M-CSF response). Together they point to a module of immune-related signal transduction and chemotactic migration.","confidence":"High","size":12,"edges":25,"triangles":21,"max_degree":11,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":10},{"id":"GO:0042531","count":9},{"id":"GO:0071560","count":9},{"id":"GO:0032869","count":9},{"id":"GO:0071300","count":9}]},{"hash":"1410421610871968211","title":"Synaptic vesicle trafficking and endocytosis","description":"The terms cluster around intracellular transport, clathrin-dependent endocytosis, and synaptic vesicle cycling (coating and exocytosis regulation), with supporting GTPase and phosphatidylinositol signaling involvement. The brain development term suggests neuronal context, consistent with a neuronal vesicle trafficking module.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0016183","count":2},{"id":"GO:0072583","count":2},{"id":"GO:2000300","count":2}]},{"hash":"243709373826249558","title":"Mitochondrial respiration and membrane protein targeting","description":"This cluster is dominated by GO terms for mitochondrial electron transport and aerobic respiration, indicating a core role in energy production. Additional terms point to membrane-associated protein trafficking and targeting (SRP-dependent cotranslational translocation, ER-to-cytosol transport), suggesting coordinated processes of proteins being directed to membranes, including mitochondria and the ER. The mix suggests a cluster of proteins involved in respiration with related membrane targeting and translocation functions, reflecting how energy production is coupled to co-translational trafficking.","confidence":"High","size":12,"edges":60,"triangles":165,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0034551","count":1},{"id":"GO:0006122","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0030433","count":1}]},{"hash":"548248600570982812","title":"Dopamine and Adrenergic GPCR Signaling","description":"The cluster is dominated by GO terms for GPCR signaling, notably dopamine- and adrenergic-receptor pathways that activate adenylyl cyclase and phospholipase C, along with cAMP and GTPase regulation. Although a few terms touch on heart development or thermogenesis, the common thread is GPCR-mediated signal transduction and its downstream signaling cascades.","confidence":"High","size":12,"edges":6,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0007191","count":8}]},{"hash":"324852915856521037","title":"Cell Cycle and DNA Repair","description":"The most represented GO terms\u2014mitotic cell cycle, cell division, DNA repair, and regulatory ncRNA-mediated gene silencing\u2014point to nuclear processes governing genome maintenance and gene regulation. The other terms seem like outliers or annotation breadth rather than defining a single cohesive function. Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0008542","count":1}]},{"hash":"605760554822007950","title":"Neuronal Mitochondria and Signaling Pathways","description":"The cluster shows enrichment for mitochondrial processes (mitochondrion inheritance; inner mitochondrial membrane organization) and neuronal signaling (dopaminergic synaptic transmission; PKC signaling; TLR3 signaling). Additional terms reference broader regulatory and remodeling processes (peptidase activity regulation, ECM disassembly), suggesting a theme of mitochondria supporting neuronal signaling and related pathway regulation rather than a single narrow function. Some terms are obsolete, but the core mitochondrial and signaling terms provide the main link.","confidence":"Medium","size":12,"edges":28,"triangles":39,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001302","count":12},{"id":"GO:1901585","count":7},{"id":"GO:0000001","count":7},{"id":"GO:0032226","count":7},{"id":"GO:0007007","count":7}]},{"hash":"1240763081708833844","title":"Cardiac calcium signaling and contraction regulation","description":"This cluster is dominated by GO terms tied to calcium signaling and cardiac muscle function, notably regulation of ryanodine-sensitive calcium-release channel activity, regulation of cardiac muscle contraction by release of sequestered calcium, and direct cardiac muscle contraction. Additional terms like cellular response to caffeine mirror calcium-triggered signaling in heart muscle. There are also transcription-regulation terms present, which may reflect co-regulated gene expression within this module. Overall, the proteins seem to form a calcium-responsive cardiac regulation module.","confidence":"High","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0000086","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":4}]},{"hash":"2252440237452053047","title":"Stimulus-responsive signaling and development","description":"The listed GO terms point to cellular responses to multiple stimuli (TGF-beta, LPS, GM-CSF), T cell receptor signaling, and core transcriptional activities (DNA replication, DNA-templated transcription). They also include developmental processes such as myoblast fusion, axonogenesis, and visual perception. Taken together, the proteins seem to participate in broader signaling and gene-regulation programs that guide differentiation across tissues rather than a single pathway. Hence a label like Stimulus-responsive signaling and development captures the shared theme.","confidence":"Medium","size":12,"edges":21,"triangles":26,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046827","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0050852","count":4}]},{"hash":"1278337602367482732","title":"Developmental Signaling and Transcription Regulation","description":"The top GO terms cluster around development and gene expression regulation, including multicellular development, DNA-templated transcription, and signaling pathways such as ERK and Wnt. The presence of cell-cycle and cytoskeletal reorganization terms suggests coordination of growth and morphogenesis, though there are some divergent terms like immune response. Overall, the proteins appear linked to developmental signaling and transcriptional control rather than a single, specific pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0070374","count":5}]},{"hash":"688451894476823787","title":"Developmental cell migration and morphogenesis regulators","description":"These terms cluster around processes that shape developing tissues: cell migration, cytokinesis, microtubule regulation, calcium-dependent adhesion, and organ morphogenesis, with supporting roles for nuclear transport and chromatin remodeling. The common thread is regulation of cell behavior during development and tissue formation.","confidence":"Medium","size":12,"edges":49,"triangles":116,"max_degree":10,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0032467","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0061198","count":7}]},{"hash":"1375376531881066923","title":"Neural and sensory organ development with trafficking","description":"The top GO terms point to development of neural tissues (CNS neuron development, cerebellum development) and sensory organs (lens development). A trafficking process (caveolin-mediated endocytosis) and other development-related processes like cell migration fit as ancillary aspects of tissue formation and organization. Overall, the theme appears to be growth and maturation of neural/sensory systems, with some noise from unrelated processes, so a moderate level of confidence is appropriate.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048240","count":7},{"id":"GO:0045736","count":7},{"id":"GO:0034501","count":7},{"id":"GO:0072584","count":6},{"id":"GO:0002088","count":6}]},{"hash":"2183387849770710146","title":"KIT Signaling and Megakaryopoiesis","description":"The cluster centers on KIT pathway signaling and megakaryocyte development, supported by angiogenesis and production of cytokines like GM-CSF and IL-3, with downstream PI3K, PLC, and NF-\u03baB activity. An immune response component (fungal-origin signaling) fits within hematopoietic/innate signaling context. The mix of KIT-related and hematopoietic terms makes a coherent theme.","confidence":"High","size":12,"edges":37,"triangles":52,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0051092","count":8},{"id":"GO:0038109","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0045425","count":8}]},{"hash":"1545561050095661445","title":"Immune and endothelial signaling regulation","description":"The proteins cluster around regulatory signaling pathways and immune/vascular processes: negative regulation of NK cell chemotaxis and T-helper 1 activation, PI3K/AKT and STAT signaling, and endothelial cell chemotaxis to FGF. While inner ear development and auditory response appear, the dominant theme is modulated signal transduction governing immune cell migration and endothelial responses. ","confidence":"Medium","size":12,"edges":50,"triangles":102,"max_degree":10,"top_function":"wound healing","top_go_terms":[{"id":"GO:2000502","count":11},{"id":"GO:0042531","count":7},{"id":"GO:0043491","count":7},{"id":"GO:0070100","count":7},{"id":"GO:0071333","count":7}]},{"hash":"444583736199232585","title":"Growth factor signaling and cell migration","description":"This cluster is enriched for signaling and stimulus-response terms (ERK/MAPK and STAT phosphorylation; TGF-beta, insulin, retinoic acid responses) and migration-related processes (neutrophil chemotaxis, smooth muscle migration, axonogenesis). The common thread is growth-factor\u2013 and cytokine-induced signaling that promotes cell movement and development.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":8},{"id":"GO:0042531","count":7},{"id":"GO:0071560","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0032869","count":7}]},{"hash":"137571468576831806","title":"Unknown","description":"The list of GO terms spans cytolysis, antimicrobial defense, and specific fertilization processes (sperm-egg recognition and fusion), but also includes unrelated terms like lactose biosynthesis, retina homeostasis, and peptidoglycan catabolism. This lack of a single coherent biological theme suggests there isn\u2019t a clear, shared function uniting these proteins, so a precise, intuitive label cannot be confidently assigned.","confidence":"","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":2},{"id":"GO:0019730","count":2},{"id":"GO:0035036","count":2},{"id":"GO:1903496","count":2},{"id":"GO:0016998","count":2}]},{"hash":"1031444163993310235","title":"Amino acid catabolism and central energy metabolism","description":"The top GO terms point to catabolic breakdown of leucine and valine, along with key steps of central carbon metabolism (glycolysis and the TCA cycle via 2-oxoglutarate). Additional terms for fatty-acyl-CoA and carnitine metabolism suggest lipid-energy connections, reinforcing a theme of energy production from varied carbon sources.","confidence":"Medium","size":12,"edges":11,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006552","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0006574","count":3},{"id":"GO:0006814","count":3}]},{"hash":"785845234485591777","title":"mRNA Splicing and Export Regulation","description":"The terms cluster around RNA processing and post-transcriptional control: cis and alternative splicing, splice site recognition, mRNA polyadenylation, mRNA export from the nucleus, and regulation of mRNA stability in response to stress, plus miRNA-mediated silencing and IRES-dependent translation initiation, all pointing to coordinated splicing/export and translational control of mRNA. This suggests a cohesive function in RNA maturation and export with downstream regulation of gene expression.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":10},{"id":"GO:0045292","count":10},{"id":"GO:0010610","count":10},{"id":"GO:0006376","count":9},{"id":"GO:0075522","count":9}]},{"hash":"1500564711301733697","title":"MAPK-driven immune signaling and endocytosis","description":"This cluster is characterized by GO terms centered on MAPK pathways (positive regulation of JNK and ERK cascades) and immune functions (TH1-type immune response and type II interferon production), along with cellular responses to xenobiotic and mechanical stimuli and vesicle trafficking (endocytosis and regulation of synaptic vesicle exocytosis). The combination suggests proteins that participate in MAPK-mediated immune signaling coupled with receptor/internalization and vesicle release processes. ","confidence":"Medium","size":12,"edges":40,"triangles":50,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0046330","count":5},{"id":"GO:0032729","count":5},{"id":"GO:0042088","count":5}]},{"hash":"1619384208665154729","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster is characterized by GO terms related to actin-based structures (podosomes, filopodium) and processes like hemocyte migration and cellular responses to mechanical stimuli, pointing to cytoskeleton-driven motility and remodeling. While some terms (e.g., uterus development, GABAergic transmission) are less related, the dominant theme is actin dynamics governing cell movement.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071803","count":3},{"id":"GO:0060065","count":2},{"id":"GO:0035099","count":2},{"id":"GO:0050885","count":2},{"id":"GO:0046847","count":2}]},{"hash":"434587149363623231","title":"PI/IP3 Signaling Across Neural and Reproductive Contexts","description":"This cluster centers on phosphatidylinositol-mediated signaling and IP3 biosynthesis, pointing to PI/Ca2+-dependent signal transduction. The presence of terms related to Rho signaling, GABAergic synaptic transmission, brain development, acrosome reaction, and egg activation suggests signaling pathways that operate across neural, reproductive, and immune-related processes, rather than a single, narrow function. The combination implies a cohesive theme around PI/IP3-driven signaling modulating diverse cellular events.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007340","count":3},{"id":"GO:0002337","count":3},{"id":"GO:0032228","count":3},{"id":"GO:0048015","count":3}]},{"hash":"610426090024164890","title":"Neural development and axon guidance","description":"Most terms revolve around neural development and axon guidance (sensory ganglia development, nerve morphogenesis, axon extension and guidance via semaphorin-plexin signaling, and neural crest\u2013related migration). A few terms touch on vascular morphogenesis, but the predominant signal is neuronal pathfinding and sensory neuron formation, so the label reflects the core theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061551","count":4},{"id":"GO:0060021","count":4},{"id":"GO:1902287","count":3},{"id":"GO:1904835","count":3},{"id":"GO:0048846","count":3}]},{"hash":"620601369496463187","title":"Neuroinflammation and neuronal signaling","description":"The GO terms cluster around inflammatory and innate immune responses (inflammatory response, response to LPS, dsRNA, cytokine signaling, NF-kappaB regulation) alongside neuronal-related processes (brain development, lamellipodium assembly, synaptic vesicle priming) and Rho-mediated cytoskeletal signaling. This suggests proteins involved in neuroinflammation with roles in cytoskeletal dynamics and synaptic function, rather than a purely neuronal or purely immune function. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007266","count":3}]},{"hash":"1563965777969829910","title":"Neural development and growth signaling with ubiquitination","description":"The top terms cluster around neural development (brain development, neural tube closure) and growth-related signaling (TORC1 signaling, glucose-mediated signaling), with interconnected ubiquitination processes (K11-linked ubiquitination, regulation of ubiquitin ligase activity). While there are additional terms related to ribosomal maturation and broader developmental contexts (seminiferous tubule development, aging), the strongest and most coherent theme centers on neural development coordinated with growth signaling and protein regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0070979","count":7},{"id":"GO:0000463","count":7},{"id":"GO:1904668","count":7},{"id":"GO:0072432","count":7}]},{"hash":"795383176182754066","title":"Lipid biosynthesis and steroid/retinoid metabolism","description":"The top GO terms cluster around the biosynthesis of complex lipids\u2014very long-chain fatty acids, fatty acid elongation, sphingolipids, and mycolic acids\u2014as well as retinol/retinal and C21-steroid hormone metabolism. This points to a cohesive theme of lipid assembly and processing, including steroid and retinoid pathways. Some antibiotic-related terms appear, but they are secondary to the dominant lipid metabolism signal.","confidence":"High","size":12,"edges":12,"triangles":3,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0008207","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0042761","count":5},{"id":"GO:0042572","count":5}]},{"hash":"362519603664887814","title":"Spermatogenesis and male germ cell development","description":"This cluster is characterized by GO terms tied to male reproduction, notably spermatogenesis and male gonad development, plus regulation of male germ cell proliferation. While some terms are related to mitochondrial/oxidative stress processes and older annotations, the presence of spermatogenesis and related regulation strongly anchors the cluster\u2019s theme to male germline biology.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006627","count":2},{"id":"GO:0045861","count":2},{"id":"GO:0007283","count":1},{"id":"GO:0070301","count":1}]},{"hash":"330399047122757438","title":"Neural Thermoregulation and Signaling","description":"The terms point to nervous system\u2013related functions: sensory perception of pain, visual learning, and operant conditioning indicate neural processing and plasticity, while regulation of membrane potential and signaling pathways (adenylate cyclase activation, PLC-mediated serotonin signaling) suggest neural signal transduction. Temperature-related terms (cellular response to temperature stimulus, diet-induced thermogenesis) imply thermoregulatory pathways coordinated by neurons, with additional inflammatory signaling (IL-8) possibly reflecting neuroimmune cross-talk. Overall, a coherent theme of neural sensing, signaling, and thermoregulation emerges.","confidence":"High","size":12,"edges":33,"triangles":39,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0042391","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0018298","count":9},{"id":"GO:0002024","count":9}]},{"hash":"988985009161915250","title":"Long-chain lipid and sterol biosynthesis","description":"The top terms cluster around synthesis and metabolism of long-chain lipids and related molecules: very long-chain fatty acid and fatty acid elongation, sphingolipid and mycolic acid biosynthesis, retinol/retinal metabolism, and C21-steroid hormone metabolism. This indicates a cohesive lipid-biosynthesis signature (lipids, sterols, and retinoids) across the proteins, with some antibiotic-related terms likely reflecting secondary metabolite pathways. ","confidence":"High","size":12,"edges":22,"triangles":6,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0008207","count":9},{"id":"GO:0046677","count":9},{"id":"GO:0042761","count":9},{"id":"GO:0042572","count":9}]},{"hash":"1775504527948242590","title":"Rho-driven dendritic spine morphogenesis","description":"The top terms cluster around dendritic spine morphogenesis, synapse localization, receptor clustering, and Rho signaling, implying a theme of actin-driven spine formation and synaptic organization regulated by Rho GTPases. Some terms (e.g., mitotic cell cycle, defense response) may reflect broader or incidental annotations, but the core signal supports synaptic development/remodeling via Rho pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007266","count":3}]},{"hash":"534653683119443047","title":"RNA silencing and translational regulation","description":"The GO terms point to RNA-based control of gene expression, with piRNA processing and miRNA-mediated silencing by inhibition of translation, plus negative regulation of translational initiation. Development-related terms (post-embryonic development, shoot apical meristem regulation, axon regeneration) suggest roles for RNA silencing in developmental contexts. Taken together, the cluster seems to collect proteins involved in post-transcriptional gene regulation via small RNAs during development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":3},{"id":"GO:0043154","count":2},{"id":"GO:0031103","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0071230","count":2}]},{"hash":"1256327626149028750","title":"Acetylation-Driven Chromatin Regulation","description":"This cluster centers on GO terms for protein N- and lysine acetylation, including N-terminal acetylation and histone H4 acetylation, along with subtelomeric heterochromatin formation, pointing to a chromatin- and transcription-regulation theme governed by acetylation. Some terms are peripheral (e.g., certain metabolic processes), but the acetylation/chromatin connection is the strongest signal.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":5},{"id":"GO:0061606","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0010125","count":3},{"id":"GO:0017196","count":3}]},{"hash":"1042472138335049402","title":"Dopaminergic Neuron Differentiation and Survival","description":"The cluster shows a clear focus on neuronal and dopaminergic biology, with GO terms for dopaminergic neuron differentiation, dopamine metabolism, and neuron cellular homeostasis, plus anti-apoptotic and necroptosis-regulation signals, suggesting development and maintenance of dopaminergic neurons. The ribosome biogenesis and translation terms likely reflect general protein synthesis needs during neuronal differentiation, and polyubiquitination indicates protein turnover. Overall, a dopaminergic neuron development and survival theme emerges.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0071542","count":2},{"id":"GO:0060544","count":2}]},{"hash":"1011067387545925190","title":"Unknown","description":"The GO terms cover immune signaling (B cell receptor signaling), neural/muscular development (substantia nigra development, myelination in peripheral nervous system, skeletal muscle fiber development, memory), cell migration, and metabolism (heme biosynthetic process) with no single cohesive thread linking all terms. This suggests the proteins do not represent a single, shared functional module.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0006783","count":4},{"id":"GO:0022011","count":3}]},{"hash":"539123191750125296","title":"Embryonic and Neural Development Gene Regulation","description":"The cluster centers on transcriptional control and RNA processing during development, with terms for DNA-templated transcription, circadian regulation of gene expression, and regulation of transcription. It also includes embryo development, CNS neuron axonogenesis, and broader developmental processes such as angiogenesis and macrophage differentiation, plus RNA splicing and miRNA transcription regulation. Together, these suggest a cohesive theme of developmental gene regulation across neural, vascular, and immune contexts, with RNA processing playing a supporting role. ","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032922","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1902894","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0001701","count":3}]},{"hash":"1639815503446139523","title":"Organ Development and Cell Cycle","description":"Top GO terms are dominated by developmental processes across multiple tissues (Schwann cell, heart, lens, and eye development) and cell cycle events (DNA replication, G2/M transition). While some terms are broader or species-specific, the strongest signal ties development to cell proliferation, justifying the label.","confidence":"Medium","size":11,"edges":8,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0046827","count":7},{"id":"GO:0014044","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0007601","count":7}]},{"hash":"122624467313719711","title":"DNA repair and replication cluster","description":"The proteins show strong representation of DNA metabolism functions: DNA repair, DNA replication, nucleotide-excision repair, and DNA-templated transcription, indicating a genome maintenance role. Supporting terms like response to X-ray and regulation of protein phosphorylation align with a DNA damage response and signaling integration, while a couple of terms touch on broader signaling or proliferation; overall the dominant theme is DNA maintenance. ","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0016311","count":3},{"id":"GO:0010165","count":2}]},{"hash":"701491224865667299","title":"Gametogenesis and chromatin silencing","description":"The cluster shows enrichment for chromatin-related terms (heterochromatin formation, silent mating-type locus silencing, rDNA silencing) and gametogenesis processes (spermatogenesis, male gonad development, vitellogenesis), suggesting a theme of chromatin-mediated transcriptional regulation during germline development. Some atypical terms like brain development may reflect cross-species annotations, but the core signal ties chromatin silencing to gametogenesis.","confidence":"Medium","size":11,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0051290","count":5},{"id":"GO:0030466","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0007296","count":4}]},{"hash":"414366433334244002","title":"DNA Repair and Xenobiotic Response","description":"The proteins cluster around DNA repair pathways (base-excision repair, alkylation repair, recombination) and cellular responses to xenobiotic/toxic substances (xenobiotic stimulus, toxic substance, ethanol), with a few obsolete terms accompanying. This combination points to a cohesive theme of DNA damage repair in response to chemical or alcohol-induced stress, justifying a label that emphasizes both repair and xenobiotic response.","confidence":"High","size":11,"edges":49,"triangles":117,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0051593","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1397211458278374747","title":"Immune Cell Migration and Endocytosis","description":"The cluster centers on actin-driven remodeling and membrane dynamics involved in immune cell movement and uptake, highlighted by actin polymerization and branching, cortical actin patches, caveolin-mediated endocytosis, and chemotaxis of myeloid/dendritic cells, along with innate immune responses. This points to a cohesive module of cytoskeleton-associated migration and vesicle trafficking in immune contexts, with occasional general adhesion components.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":7},{"id":"GO:0072584","count":6},{"id":"GO:0090135","count":6},{"id":"GO:0060065","count":6},{"id":"GO:0045087","count":6}]},{"hash":"1577038558607601171","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal small subunit assembly, and translation, which together point to proteins involved in ribosome production and protein synthesis. A few DNA repair-related terms appear, but they are less central to the cluster\u2019s core function. This suggests the proteins group primarily around ribosome assembly and function rather than DNA repair.","confidence":"High","size":11,"edges":11,"triangles":4,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000028","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006407","count":2},{"id":"GO:0033683","count":1}]},{"hash":"1254668983932699734","title":"Actin remodeling and leukocyte migration","description":"The cluster shows several actin-related terms (actin filament branching, actin cortical patch assembly) along with cell migration and dendritic cell chemotaxis, indicating a core theme of actin cytoskeleton remodeling driving immune cell movement. Caveolin-mediated endocytosis and other membrane/membrane-protrusion terms support this cytoskeletal/motility emphasis, while innate immune response aligns with leukocyte activity. An outlier term (uterus development) does not fit the main theme, but the dominant signal is actin dynamics and immune cell migration.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072584","count":2},{"id":"GO:0090135","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0060152","count":2}]},{"hash":"2064839911700621299","title":"Ubiquitin-dependent NF-kappaB regulatory proteins","description":"The top GO terms cluster around ubiquitination (K6-linked and autoubiquitination) and ubiquitin-dependent protein catabolic processes, with connections to NF-kappaB activation and JNK cascade regulation, and immune-related processes like V(D)J recombination. This suggests the proteins act as regulators of ubiquitin-mediated signaling, especially NF-kappaB pathways.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0085020","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0051092","count":5},{"id":"GO:1901253","count":5}]},{"hash":"1479996252825328161","title":"Chromatin modification and transcription regulation","description":"The key terms point to histone acetylation events and regulation of DNA-templated transcription, indicating a shared function in chromatin remodeling and transcription control; one term also hints at protein complex assembly, which can accompany chromatin regulators.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0043981","count":1},{"id":"GO:0043982","count":1},{"id":"GO:0043968","count":1}]},{"hash":"1987524184219298274","title":"Neural development and mitochondrial-ciliary signaling","description":"This cluster centers on neural-related processes (neuronal communication, learning, fear response) and development (fin regeneration, epithelial differentiation), with strong links to mitochondrial function (protein import into mitochondrial matrix, calcium import into mitochondrion, mitophagy regulation, ROS regulation) and cilium assembly. The combination suggests a theme of neural development and signaling coordinated with mitochondrial and ciliogenic regulation.","confidence":"Medium","size":11,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030855","count":2},{"id":"GO:0031101","count":2},{"id":"GO:0007270","count":2},{"id":"GO:0036444","count":2},{"id":"GO:0001662","count":2}]},{"hash":"311113717364925665","title":"Centrosome and Meiosis Cell-Cycle Regulation","description":"The cluster is strongly enriched for terms about centrosome cycle, centrosome duplication, centriole replication, and meiotic progression (meiotic nuclear division, oocyte differentiation, G2/M transition), suggesting a cohesive role in coordinating centrosome/centriole dynamics with meiosis and cell-cycle control in oocytes. A couple of outliers (retrotransposition, obsolete rRNA export) likely reflect incidental annotations rather than core functions.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":2},{"id":"GO:0032197","count":1},{"id":"GO:0010825","count":1},{"id":"GO:0009994","count":1},{"id":"GO:0046599","count":1}]},{"hash":"2140866223167797010","title":"Immune receptor signaling and cytoskeletal remodeling","description":"The cluster is enriched for B cell and T cell receptor signaling, integrin-mediated signaling, and Rho-driven actin cytoskeleton reorganization (including podosome assembly), indicating lymphocyte signaling tightly coupled to cytoskeletal dynamics. While a few terms on growth hormone signaling and apoptosis regulation appear, the dominant theme is immune receptor signaling intertwined with cytoskeletal remodeling. ","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0035023","count":2}]},{"hash":"995721576873890413","title":"Vision-Related Neural Signaling and Learning","description":"The GO terms point to retina development, visual learning, and signaling pathways (GPCR/PLC/cAMP) underpinning neural activity and plasticity, with related terms on cell proliferation and systemic signaling (IL-8, blood pressure), suggesting a cluster centered on vision-associated neural signaling and learning.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0008284","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0008283","count":6},{"id":"GO:0008542","count":5}]},{"hash":"2950564400774618","title":"Amino acid catabolism and glucose stress response","description":"The cluster centers on amino acid catabolism (serine and homocysteine) combined with metabolic adaptation to low glucose (glucose starvation response, gluconeogenesis regulation, GTP biosynthesis). Additional signals include osmolyte transport (glycine betaine), redox/signaling activities (H2S biosynthesis, kinase activation), and an immune-related response (IL-4). This suggests a cohesive theme of metabolic stress adaptation with associated signaling, though the immune term is less directly tied to core metabolism.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0006565","count":8},{"id":"GO:0045722","count":8},{"id":"GO:0070814","count":8},{"id":"GO:0043418","count":8}]},{"hash":"1772946365730454603","title":"B and NK Cell Signaling with Phagocytosis","description":"This cluster is dominated by GO terms such as B cell receptor signaling, B cell affinity maturation, NK cell mediated cytotoxicity, type I interferon signaling, integrin signaling, and phagocytosis, pointing to coordinated adaptive and innate immune activation and cytotoxic/phagocytic activities. A few terms related to insulin signaling appear, but the immune-related terms clearly define the main theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0042267","count":6},{"id":"GO:0060337","count":6},{"id":"GO:0007229","count":6}]},{"hash":"839507070334795340","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":48,"triangles":123,"max_degree":10,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0008615","count":4},{"id":"GO:0006094","count":4},{"id":"GO:0007584","count":4}]},{"hash":"1927235288473691307","title":"TNF and IL-1\u2013driven immune activation","description":"This cluster is strongly characterized by GO terms for cellular responses to tumor necrosis factor and interleukin-1, plus monocyte activation, pointing to an inflammatory cytokine signaling theme. While a couple of terms touch on development and other processes, the dominant signal is immune activation in response to cytokines.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":3},{"id":"GO:0042117","count":2},{"id":"GO:0071347","count":2},{"id":"GO:0044344","count":2},{"id":"GO:0007507","count":2}]},{"hash":"2267020431831271939","title":"Cell Signaling and Membrane Trafficking","description":"The top GO terms point to multiple signaling pathways (insulin receptor, T cell receptor), along with membrane-related processes (caveolin-mediated endocytosis, Golgi-to-plasma membrane transport, protein export from nucleus) and cell movement, suggesting a group of proteins coordinating signaling with trafficking and gene regulation rather than a single pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0046626","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0006813","count":5},{"id":"GO:0008285","count":5}]},{"hash":"351993657983938296","title":"Ubiquitin-Dependent Regulation of Apoptosis and Cell Cycle","description":"The top GO terms cluster around ubiquitination (K29- and K63-linked ubiquitination, autoubiquitination, ubiquitin-dependent protein catabolic process) along with apoptosis and cell cycle regulation. This suggests a module where ubiquitin signaling governs cell fate decisions and progression through the cell cycle, with auxiliary links to transcription and GTPase activity. The presence of apoptosis-related terms supports the apoptotic regulation aspect, while the cell cycle term anchors the division control theme. Overall, the label emphasizes ubiquitin-mediated control of apoptosis and cell cycle.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0035519","count":3},{"id":"GO:0070534","count":3}]},{"hash":"2237512511703099132","title":"B cell activation and phagocytosis with adhesion","description":"Explanation: The top GO terms show strong enrichment for immune processes\u2014innate immune response, classical complement activation, phagocytosis and its recognition/engulfment, and B cell receptor signaling/activation\u2014alongside cell\u2013cell adhesion. This points to a cluster of proteins involved in immune cell activation and phagocytic/antigen-presenting activity, with adhesion molecules facilitating cell interactions. Nervous system development and ossification terms appear less central and may reflect shared adhesion components rather than core function.","confidence":"High","size":11,"edges":17,"triangles":7,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0006910","count":6}]},{"hash":"429050474305478408","title":"Developmental ECM and cell adhesion","description":"This cluster centers on extracellular matrix organization and adhesion (collagen fibril organization, integrin-mediated adhesion, calcium-independent adhesion) and ties to developmental processes (Notch receptor processing, keratinocyte differentiation, palatal shelf morphogenesis). While also including neural-related terms (myelination, glutamatergic synaptic transmission) and inflammatory/ion-response signals (TNF response, manganese ion response), the overarching theme appears to be ECM remodeling and cell\u2013matrix/cell\u2013cell signaling guiding tissue development and differentiation.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030199","count":8},{"id":"GO:0007220","count":8},{"id":"GO:0034612","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0010042","count":8}]},{"hash":"1334605535307229284","title":"Axon guidance and neural development","description":"This cluster is dominated by terms related to neural patterning and axon guidance\u2014semaphorin-plexin signaling, trigeminal nerve organization, and branchiomotor neuron axon guidance\u2014along with multicellular development, suggesting a cohesive role in neural development and axon pathfinding. Some immune and metabolic terms present are likely secondary or pleiotropic. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":3},{"id":"GO:0007252","count":3},{"id":"GO:0032609","count":3},{"id":"GO:0090197","count":3},{"id":"GO:1902287","count":3}]},{"hash":"632676693848155284","title":"Lipid Metabolism and Hormone Processing","description":"The top terms are dominated by lipid-related biology: triglyceride catabolic process and leukotriene biosynthetic process, with insulin processing pointing to hormone maturation. A few other terms (viral genome replication, DNA recombination, hatching behavior) are present but much less represented. Overall, the strongest signal is lipid metabolism and hormone processing, so this name captures the core theme of the cluster.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0019370","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0035187","count":2}]},{"hash":"984886576844467522","title":"Protein quality control and stress response","description":"This cluster centers on protein homeostasis and stress signaling, highlighted by terms for unfolded protein response, post-translational targeting to membranes, and regulation of inclusion bodies, as well as responses to oxidative stress (hydrogen peroxide). While other terms (DNA replication, cell morphogenesis, iron-sulfur cluster assembly) are broader or less directly related, the dominant theme is maintaining protein folding, maturation, and cellular stress management.","confidence":"Medium","size":11,"edges":34,"triangles":61,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0000902","count":6},{"id":"GO:0006880","count":6},{"id":"GO:1902037","count":6},{"id":"GO:0070880","count":6}]},{"hash":"902908403360898834","title":"Unknown","description":"The top GO terms span DNA replication and viral genome replication alongside membrane trafficking, protein import, SNARE disassembly, autophagy, and proteasomal degradation, plus heat response and respiration regulation. This combination lacks a single coherent biological theme, suggesting a heterogeneous cluster rather than a unified functional module.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903715","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0019079","count":4},{"id":"GO:0070370","count":4},{"id":"GO:0016558","count":4}]},{"hash":"2177169925956021680","title":"Actin Cytoskeleton Remodeling and Junction Signaling","description":"Proteins in this cluster predominantly relate to remodeling of the actin cytoskeleton (actin filament branching, podosome assembly) and organization of adherens junctions, with additional links to cellular responses to mechanical stimuli and signaling pathways (ERK cascade, Wnt, T cell receptor signaling). The common thread is coordination of cytoskeleton dynamics with cell\u2013cell contacts and signal transduction, suggesting a pathway-focused cluster around cytoskeleton remodeling and adhesion signaling.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0090135","count":3},{"id":"GO:0034332","count":3},{"id":"GO:1990967","count":3}]},{"hash":"1432352737147617057","title":"Neural development and cocaine response","description":"This cluster combines brain-related development terms (mushroom body development, substantia nigra development) with a behavioral term (behavioral response to cocaine), and includes supportive neuronal signaling/process terms (cellular response to amino acid stimulus, intraciliary transport, TOR signaling, GTPase regulation). Although a couple of terms are more general (DNA damage checkpoint signaling, NF-kappaB regulation), the strongest cohesive theme is neural development and cocaine-associated neuronal signaling/behavior. ","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000077","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0032008","count":1},{"id":"GO:0071230","count":1}]},{"hash":"1787277691679421462","title":"Endosome trafficking and exocytosis","description":"This cluster centers on vesicle movement within the endomembrane system, including cytoplasm-to-vacuole targeting, early-to-Golgi and early-to-late endosome transport, and calcium-dependent exocytosis. While some GO terms touch on signaling and development (ERK/Wnt pathways, nervous system and lung morphogenesis), the strongest and most coherent signal among the terms is endosomal trafficking and related exocytosis, justifying a vesicle-transport-focused label.","confidence":"Medium","size":11,"edges":13,"triangles":6,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032258","count":10},{"id":"GO:0070374","count":10},{"id":"GO:0031532","count":10},{"id":"GO:0034498","count":10},{"id":"GO:0090263","count":10}]},{"hash":"768004497516532096","title":"Cardiac Muscle Development and Myofibril Assembly","description":"The cluster is enriched for heart development and cardiac myofibril assembly terms, pointing to proteins involved in cardiac muscle formation and sarcomere organization. Additional terms related to muscle contraction regulation, cell polarity, and membrane targeting suggest supportive cellular architecture and signaling in cardiac cells, tying the set to cardiac muscle function. Overall, the dominant cardiac-related cues support a cardiac muscle development/sarcomere assembly theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0014728","count":4},{"id":"GO:2000810","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0090314","count":4}]},{"hash":"157634168722320931","title":"Unknown","description":"The GO terms span transcription and RNA processing (DNA-templated transcription, mRNA processing, splicing) but also unrelated processes such as osteoclast fusion, calcium release, ERAD-associated protein handling, deglycosylation, and even social behavior, indicating a heterogeneous set with no single cohesive function to tie the proteins together.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0072675","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0010951","count":2}]},{"hash":"326286933899577370","title":"Cell cycle control and ubiquitin signaling","description":"The cluster\u2019s top GO terms cluster around mitotic cell cycle, DNA damage checkpoint response, and ubiquitin-regulated processes (K11-linked ubiquitination, ubiquitin ligase activity), plus transcription and ribosome biogenesis terms. This points to a core theme of cell-cycle progression governed by ubiquitin-mediated regulation of protein turnover and gene expression. Some development-related terms are present but seem ancillary to the main proliferation/biogenesis axis. Therefore, the label emphasizes the central role of cell cycle control and ubiquitin signaling with supporting transcriptional and ribosomal context.","confidence":"Medium","size":11,"edges":26,"triangles":25,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0032466","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0070979","count":3}]},{"hash":"941643543371348340","title":"Cardiac conduction and heart development","description":"The top GO terms are dominated by cardiac electrophysiology and development, including regulation of heart rate by cardiac conduction, SA node action potential, and depolarization/repolarization of atrial/ventricular myocardium, plus heart development. Immune and proteolysis terms appear secondary noise, but do not override the central cardiac theme.","confidence":"High","size":11,"edges":29,"triangles":22,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0086091","count":8},{"id":"GO:0031295","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0060371","count":8},{"id":"GO:0006508","count":8}]},{"hash":"1499408190328759917","title":"Golgi and vesicle trafficking","description":"This cluster\u2019s terms repeatedly point to Golgi-associated transport and vesicle movement, including Golgi to vacuole transport, Golgi localization, retrograde Golgi-ER and endocytosis, plus endosome-to-Golgi sorting, indicating a cohesive vesicular trafficking theme centered on the Golgi apparatus. Tissue- or neuron-specific terms like Purkinje cell maturation and pigmentation fit within vesicle dynamics in specialized cells, supporting the overall connection to vesicular transport processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032367","count":2},{"id":"GO:0006896","count":2},{"id":"GO:0048313","count":2},{"id":"GO:0016185","count":2},{"id":"GO:0021691","count":2}]},{"hash":"1390599681525385114","title":"GPCR Signaling and Chemotaxis","description":"GO terms point to GPCR-driven signaling (adenylate cyclase activation, PLC via serotonin receptors) and opsin signaling, with associated chemotaxis of eosinophils and astrocytes and vascular regulation. This suggests a common function: GPCR-mediated communication coordinating neural signaling, immune cell migration, and blood pressure control.","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":7},{"id":"GO:0035106","count":7},{"id":"GO:0007190","count":7},{"id":"GO:2000484","count":7},{"id":"GO:0007208","count":7}]},{"hash":"154431875153466987","title":"Neural GPCR Signaling and Astrocyte Regulation","description":"The top GO terms point to GPCR-driven signaling that activates adenylate cyclase and related pathways (including serotonin receptor signaling and PLC activation), plus Rho signaling, all of which are core to neuronal communication. The presence of learning-related terms (visual learning, operant conditioning) suggests brain function, while astrocyte chemotaxis regulation and IL-8 production indicate neuroimmune involvement. Taken together, the cluster appears to reflect neural GPCR signaling with astrocyte/immune interactions.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0010579","count":11},{"id":"GO:0035025","count":11},{"id":"GO:0022900","count":11}]},{"hash":"641309773433569346","title":"Cardiac Development and Calcium/cAMP Signaling","description":"The cluster is dominated by GO terms tied to heart development, regulation of cardiac muscle contraction, calcium ion release, and cAMP-related signaling and phosphorylation, which together point to heart development and excitation\u2013contraction coupling as the core theme. Some terms related to vision/opsin signaling and amphetamine response appear but are less prominent and likely incidental, not defining the cluster\u2019s main function.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":8},{"id":"GO:0022400","count":8},{"id":"GO:0008284","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0055117","count":8}]},{"hash":"719280573262085961","title":"Vision and neural signaling","description":"This cluster centers on neural signaling and sensory processing, highlighted by visual learning, opsin- and serotonin-mediated signaling, and adenylate cyclase activation. While there are additional terms related to blood pressure regulation and immune cell chemotaxis, the core theme aligns with vision-related and neural signaling pathways, suggesting a cohesive group of proteins involved in sensory processing and neuronal signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":7},{"id":"GO:0035106","count":7},{"id":"GO:0007190","count":7},{"id":"GO:2000484","count":7},{"id":"GO:0007208","count":7}]},{"hash":"1156015515328066986","title":"Mitochondrial respiration complex IV assembly and translation","description":"This cluster is driven by GO terms tied to mitochondrial function, notably assembly of the respiratory chain complex IV and the respirasome, as well as regulation of mitochondrial translation and cytochrome c release, pointing to mitochondrial energy metabolism and apoptosis control. A few terms reflect plant-specific processes (guard cell morphogenesis, pollen tube growth) or lipid metabolism, which are peripheral to the central mitochondrial theme. Overall, the dominant signal is mitochondrial biogenesis and function, justifying a Medium confidence label. ","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0010442","count":1},{"id":"GO:0034478","count":1},{"id":"GO:0030643","count":1},{"id":"GO:0006071","count":1}]},{"hash":"271245202145119676","title":"Unknown","description":"The assigned GO terms span signaling pathways (adenylate cyclase activation, PLC), autonomic regulation (blood pressure, heart rate), neurotransmitter handling (dopamine uptake, synaptic plasticity), and diverse immune/neurodevelopment processes (defense to bacteria, dendritic cell differentiation, interneuron migration). There isn\u2019t a single coherent biological theme tying these functions together, so a precise, representative label is not apparent.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0007202","count":4},{"id":"GO:0001985","count":4},{"id":"GO:0051586","count":4}]},{"hash":"625402501733585298","title":"Innate antibacterial defense and immune signaling","description":"The cluster shows a clear emphasis on antibacterial and innate immune processes, with terms like defense response to bacterium, innate immune response, detection of lipoteichoic acid, and T cell costimulation. While there are a few outlier terms related to development or physiological regulation (kidney development, heart rate regulation, fat cell proliferation, sodium transport), the dominant signal is innate immune defense against bacteria and related immune signaling.","confidence":"Medium","size":11,"edges":11,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:0001822","count":2},{"id":"GO:1901896","count":2},{"id":"GO:0070392","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1501565020995108199","title":"Glycerophospholipid Biosynthesis and Remodeling","description":"The cluster is dominated by GO terms for lipid production and remodeling, including phosphatidylcholine acyl-chain remodeling, cardiolipin remodeling, ether lipid biosynthesis, CDP-diacylglycerol biosynthesis, and platelet activating factor biosynthesis, indicating a core theme of glycerophospholipid metabolism and membrane lipid remodeling; a few developmental terms appear ancillary rather than defining the cluster.","confidence":"High","size":11,"edges":25,"triangles":22,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002071","count":8},{"id":"GO:0006663","count":8},{"id":"GO:0008611","count":8},{"id":"GO:0036151","count":8},{"id":"GO:2001246","count":8}]},{"hash":"1718450492089335647","title":"Innate Immune Cytokine Signaling","description":"The top GO terms center on innate immune response and cytokine production, including IL-1\u03b2 production and TNF-mediated signaling, with a broader theme of positive regulation of inflammatory cytokine production. This points to a cluster enriched for cytokine-driven innate immunity and inflammatory signaling. A few miscellaneous terms (cell division, UV response, GPCR regulation) are present but appear secondary to the dominant inflammatory-cytokine theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0050702","count":2},{"id":"GO:1900017","count":2},{"id":"GO:0051260","count":2}]},{"hash":"1932988271768582756","title":"Chromatin Modification and Transcription Regulation","description":"This cluster\u2019s terms cluster around chromatin modification (histone demethylation) and transcriptional control (DNA-templated transcription), with additional signals pointing to developmental regulation (vasculogenesis and myoblast differentiation). The presence of a Notch signaling regulator term aligns with developmental transcriptional control. Despite some obsolete terms, the common theme appears to be chromatin-mediated regulation of gene expression during development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045746","count":4},{"id":"GO:0034720","count":4},{"id":"GO:0070544","count":4},{"id":"GO:0042264","count":3},{"id":"GO:2001214","count":3}]},{"hash":"213963901701827851","title":"Cardiac GPCR signaling and contraction regulation","description":"This cluster centers on GO terms tied to heart development and direct regulation of cardiac contraction, dominated by GPCR pathways such as acetylcholine receptor signaling and tachykinin receptor signaling, as well as GPCR desensitization/internalization, and related ion transport. Together these indicate proteins functioning in cardiac GPCR signaling that modulates heart muscle contractility.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0003108","count":2},{"id":"GO:0002029","count":2},{"id":"GO:0007213","count":2},{"id":"GO:0045988","count":2}]},{"hash":"1947399804356756610","title":"Endothelial signaling and ECM remodeling","description":"The terms cluster around signaling pathways that affect endothelial cells (PI3K/insulin signaling, ERK cascade, NO biosynthesis), along with ECM remodeling and adhesion processes (collagen fibril organization, integrin-mediated adhesion) and inflammatory responses (acute-phase). This suggests a cohesive theme of endothelial signaling driving vascular remodeling and ECM dynamics, with mechanotransduction and inflammation as complementary components.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0046628","count":2},{"id":"GO:0010596","count":2},{"id":"GO:0070371","count":2},{"id":"GO:0006953","count":2}]},{"hash":"828649478476601230","title":"Neural signaling and visual learning","description":"The top GO terms point to neuronal signaling cascades (Ca2+ release, PLC and adenylyl cyclase activation, serotonin receptor signaling) and vision-related pathways (opsin signaling, visual learning, operant conditioning). Although some terms touch on broader processes (blood pressure regulation, astrocyte chemotaxis), the dominant theme is neural signal transduction with a clear emphasis on vision and learning-related functions.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":10},{"id":"GO:0008542","count":8},{"id":"GO:0035106","count":8},{"id":"GO:0007190","count":8},{"id":"GO:2000484","count":8}]},{"hash":"735875223722743082","title":"Embryonic development and organ morphogenesis","description":"This cluster's GO terms cluster around embryogenesis\u2014left/right patterning, heart-related epithelial-to-mesenchymal transition, cartilage morphogenesis, placental and trophoblast differentiation, and broader endocrine system development\u2014point to coordinated developmental programs rather than a single molecular function. A few RNA-processing terms are present but do not define the main theme; overall, the proteins are best described as involved in embryonic development and organ morphogenesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003323","count":3}]},{"hash":"946386601672547702","title":"Cross-tissue embryonic development","description":"These terms cluster around developmental processes across multiple tissues and organs, including craniofacial (roof of mouth), axial structures (rhombomeres, somites), heart (atrioventricular node, Purkinje cells), retina (retinal ganglion cell axon guidance), uterus, and related transcriptional regulation (negative regulation of RNA Pol II). The diversity and sparse connectivity suggest a general developmental program rather than a single shared pathway.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0031290","count":7},{"id":"GO:0021569","count":7},{"id":"GO:0060065","count":7}]},{"hash":"1084372947419025196","title":"Methyltransferases for RNA, histones, and proteins","description":"The GO terms are dominated by various methylation activities across RNA (rRNA, tRNA), histone, and protein substrates (arginine, lysine, N-terminal), along with transcription regulation and cellular senescence. This points to a cluster of methyltransferase enzymes and associated regulatory processes governing epigenetic and RNA modification pathways.","confidence":"High","size":10,"edges":38,"triangles":75,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0016049","count":4},{"id":"GO:0043985","count":4},{"id":"GO:0090398","count":4}]},{"hash":"2129602796281022249","title":"Developmental Differentiation Regulation","description":"This cluster shows enrichment for terms involving negative regulation of transcription factor activity and multiple tissue-specific differentiation/fate commitment processes (muscle morphogenesis, glial cell fate, stomatal development, pancreatic cell fate, etc.), suggesting a common role in controlling when/where cells differentiate across tissues rather than a single pathway.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043433","count":10},{"id":"GO:0045668","count":10},{"id":"GO:0060766","count":10},{"id":"GO:0060415","count":9},{"id":"GO:2000820","count":9}]},{"hash":"704055269458413919","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0016180","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0048455","count":2},{"id":"GO:0015995","count":2}]},{"hash":"732224244478987072","title":"Dopaminergic neuron differentiation and neural development","description":"This cluster shows strong representation of neuronal development terms, especially dopaminergic neuron differentiation and midbrain dopaminergic neuron differentiation, along with neural crest cell migration, cochlea morphogenesis, and peripheral nervous system neuron development. Together these terms indicate involvement in neural patterning and dopaminergic lineage specification, with supporting transcription regulation terms that likely modulate these processes.","confidence":"High","size":10,"edges":14,"triangles":5,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071542","count":5},{"id":"GO:0001755","count":5},{"id":"GO:0090103","count":5},{"id":"GO:0051216","count":5},{"id":"GO:1904948","count":5}]},{"hash":"1732969431852703859","title":"Embryonic Organ Morphogenesis","description":"The top GO terms cluster around developmental processes across multiple organs (heart development and outflow tract morphogenesis; hindlimb, placenta, eye, habenula, prostate, and gonadal development). The presence of estrogen receptor signaling further supports regulatory roles in embryonic development. Together, these terms indicate a shared theme of embryonic organ/tissue morphogenesis, justifying this label as representative of the cluster.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000288","count":9},{"id":"GO:0035116","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0001890","count":9},{"id":"GO:0048048","count":9}]},{"hash":"2087929735325888575","title":"Neural Development and MAPK Signaling","description":"This cluster is dominated by GO terms for nervous system/brain development (nervous system development, brain development, hippocampus development) and signaling pathways that regulate neuronal growth and survival (positive regulation of JNK cascade, positive regulation of ERK1/2 cascade, and positive regulation of neuron apoptotic process). The co-occurrence of mechanotransduction and neuronal development terms further supports a neurodevelopmental signaling theme. A few terms refer to immune signaling (T cell receptor signaling, interferon production), likely reflecting shared signaling components across pathways rather than a primary immune function. Overall, the core theme appears to be neural development coupled with MAPK signaling. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0050852","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0032729","count":3}]},{"hash":"1981966823689334296","title":"GTPase-driven signaling and cytoskeletal dynamics","description":"The terms show a focus on signaling regulation (small GTPase pathways, ERK and Wnt signaling, T cell receptor signaling) and cytoskeletal control (actin reorganization, cell migration). Ubiquitination may modulate these processes, together suggesting a cluster of proteins that coordinate signaling outputs with cytoskeletal dynamics and movement.","confidence":"Medium","size":10,"edges":20,"triangles":6,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:1903542","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0090263","count":5}]},{"hash":"581110269493850884","title":"Membrane transporters for ions and metabolites","description":"The top GO terms are dominated by transmembrane transport activities for chloride, fructose, L-aspartate, bicarbonate, and sulfate, pointing to a coherent theme of membrane transporter proteins handling ions and metabolites. Some terms like sperm capacitation and sensory perception of sound relate to ion flux and transporter function in reproductive and auditory contexts, supporting a unifying transport-focused cluster. Other terms (gastric acid secretion, sporulation, transcription regulation) are broader or context-dependent but do not overturn the overall transport-centric signal. Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048240","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0001696","count":3},{"id":"GO:0030435","count":3},{"id":"GO:1902476","count":3}]},{"hash":"1649420760625799801","title":"Neural and inner ear development with adhesion","description":"The top GO terms cluster around neural development (neuron cell-cell adhesion, corticospinal tract morphogenesis, radial glial differentiation) and inner ear development (inner ear development, stereocilium organization), plus adhesion/polarity features (calcium-dependent cell-cell adhesion, apical protein localization, intermicrovillar adhesion). This points to a set of proteins involved in shaping neural and sensory epithelia and their adhesive interactions, with a minor outlier term related to B cell differentiation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007158","count":6},{"id":"GO:0021957","count":5},{"id":"GO:0060019","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0032912","count":5}]},{"hash":"1512438628523697346","title":"Immune and developmental signaling regulators","description":"The proteins appear to regulate multiple signaling pathways (GTPase activity, JNK, Wnt, tyrosine phosphorylation) and are associated with immune responses (innate immunity, T cell signaling, interferon pathways), as well as a developmental context (heart development). This suggests a broad role as regulators of immune- and development-related signaling rather than a single pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0050852","count":3}]},{"hash":"396304961646236333","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The cluster is dominated by terms for actin cytoskeleton organization and assembly of cellular protrusions (lamellipodium, filopodium, podosome) and cell migration, plus regulation of Rho/Ras signaling that coordinates cytoskeletal dynamics. While unrelated processes appear (heart development, NK T cell differentiation), the shared function is actin-driven motility.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":9},{"id":"GO:0030032","count":9},{"id":"GO:0032287","count":9},{"id":"GO:0046847","count":9},{"id":"GO:0007507","count":9}]},{"hash":"1329510697109390549","title":"Synapse formation and neural development","description":"Dominant GO terms include positive regulation of synapse assembly, cell adhesion (homophilic and heterophilic), and neuroligin clustering at postsynaptic membranes, all pointing to neural connectivity and nervous system development. While a few terms touch sensory structures and cardiac excitability, the prevailing theme is synapse formation and neural maturation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1372716250589069674","title":"Neural development and xenobiotic response","description":"This cluster is dominated by terms tied to embryonic and brain development (in utero embryonic development, cerebral cortex development, brain development), pointing to neural development. The presence of a xenobiotic response and related apoptotic processes suggests stress or detox signaling during development. While other terms like guanine metabolism and stem cell proliferation appear, they are secondary to the neural-development theme. ","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0007420","count":2}]},{"hash":"144186111939311486","title":"Post-transcriptional mRNA splicing and translation control","description":"The top GO terms converge on post-transcriptional regulation: alternative splicing via the spliceosome, splice site recognition, mRNA stability regulation, and mRNA export, plus translation-related terms such as IRES-dependent initiation and miRNA-mediated silencing. This points to a cohesive cluster of proteins coordinating RNA maturation, export, and translation control, including viral translation mechanisms. Confidence: High","confidence":"","size":10,"edges":41,"triangles":91,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":10},{"id":"GO:0000381","count":7},{"id":"GO:0006376","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0035278","count":6}]},{"hash":"162042259920427514","title":"Mitochondrial respiration and apoptosis signaling","description":"This cluster is dominated by mitochondrial electron transport terms (cytochrome c to oxygen, ubiquinol to cytochrome c), along with hydrogen peroxide metabolism and apoptotic process terms, including cytochrome c\u2013mediated activation. The convergence on mitochondrial energy production, oxidative stress handling, and apoptosis suggests a cohesive theme around mitochondria-driven respiration coupled to cell death signaling.","confidence":"High","size":10,"edges":32,"triangles":48,"max_degree":9,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0008635","count":8},{"id":"GO:0006470","count":8},{"id":"GO:0042743","count":8},{"id":"GO:0006123","count":8},{"id":"GO:0006122","count":8}]},{"hash":"2221704310851369630","title":"Spliceosome-driven RNA processing and translation control","description":"The cluster is enriched for GO terms linking splicing regulation (via the spliceosome), alternative splicing control, and mRNA export, with additional terms touching on translation initiation, translation reinitiation, IRES-dependent initiation, and stress-related mRNA stability. This points to a coherent theme of post-transcriptional gene expression regulation, combining RNA processing with control of translation.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0000381","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0002188","count":6}]},{"hash":"715508591347224245","title":"Rho-regulated actin remodeling","description":"The top GO terms cluster around regulation of Rho protein signal transduction, GTPase activity regulation, and lamellipodium/ruffle assembly, all pointing to coordinated actin cytoskeleton remodeling driven by Rho family GTPases. While a few terms touch on endocytosis and innate immunity, the dominant signal is actin dynamics at the cell cortex, so the label reflects the core function of the group.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:1900029","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043552","count":2}]},{"hash":"810422798765335652","title":"NF-\u03baB Activation via Ubiquitination","description":"The cluster is enriched for ubiquitin-related processes (autoubiquitination, ubiquitin-dependent protein catabolic process, K63-linked ubiquitination) and NF-\u03baB signaling components (IKK activation, I\u03baB phosphorylation) as well as TNF-mediated signaling and innate immune response, indicating proteins that regulate NF-\u03baB activation through ubiquitination in innate immunity.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0043123","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007250","count":5}]},{"hash":"1140807580736583237","title":"Neuronal Dendrite Development and Ephrin Signaling","description":"A cluster dominated by neuronal development functions, including dendrite development and morphogenesis, and ephrin receptor signaling, with additional hints of neuronal stem cell maintenance and ncRNA-mediated gene silencing. Some plant-related terms appear but are less central; overall the set points to neural differentiation and dendritic signaling processes.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0016358","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0048366","count":2},{"id":"GO:0009955","count":2}]},{"hash":"1350557370661675516","title":"Unknown","description":"The top GO terms are diverse and include translation, ubiquitination, protein oligomerization, innate immune response, and metal ion response, with several terms marked obsolete; there isn\u2019t a single unifying function linking these proteins, so a confident, representative label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070979","count":1},{"id":"GO:0070206","count":1},{"id":"GO:0051348","count":1},{"id":"GO:0051291","count":1}]},{"hash":"531969315513918020","title":"Nuclear gene expression and cell cycle regulation","description":"The top GO terms cluster around nuclear processes: transcription elongation regulation, RNA splicing, and mRNA export, plus nuclear membrane disassembly and the G2/M cell cycle transition, suggesting a shared role in nuclear gene expression and cell cycle control. Protein heterooligomerization indicates these proteins act in multiprotein complexes; some signaling-related terms may be peripheral context rather than core function.","confidence":"Medium","size":10,"edges":21,"triangles":18,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:1902902","count":2},{"id":"GO:0032784","count":1},{"id":"GO:0051081","count":1},{"id":"GO:0071380","count":1}]},{"hash":"2037129059526644257","title":"Detoxification and Oxidative Stress Response","description":"The cluster\u2019s top GO terms cluster around toxin catabolic process, glutathione metabolic process, and cellular oxidant detoxification, indicating detoxification and oxidative stress handling. Some terms also touch on development and defense, but the strongest signal is detox/oxidative pathways.","confidence":"Medium","size":10,"edges":26,"triangles":31,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009407","count":3},{"id":"GO:0006749","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0060065","count":3}]},{"hash":"1709644202777621822","title":"mRNA processing and translational control","description":"This cluster centers on post-transcriptional regulation: translation initiation/reinitiation and preinitiation complex formation, plus splicing regulation and mRNA stability. The co-occurrence of translation-related terms with spliceosome-associated terms suggests coordinated control of mRNA maturation and translation, with some deubiquitination involvement. Therefore \"mRNA processing and translational control\" is an informative label.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0006376","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0035523","count":3}]},{"hash":"242567667064886764","title":"Nuclear import and signaling","description":"The cluster mixes terms tied to intracellular communication and trafficking: NLS-bearing protein import into the nucleus, TORC1 signaling, and positive regulation of GTPase activity, along with related structural/nuclear roles such as ciliary docking and telomere maintenance. While some terms (like cocaine response or visual learning) seem less directly connected, the strongest common theme is nuclear/cytoplasmic transport plus signaling regulation, suggesting a broad but coherent cell signaling/transport cluster rather than a single pathway.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0007004","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0045429","count":2}]},{"hash":"680157380605230235","title":"Glial development and neural growth","description":"Several GO terms point to neural development, notably formation of radial glial scaffolds, glial cell proliferation, and activation of bipolar cell growth, suggesting a glia- and neural-growth-centric cluster. While there are also general processes like translation and mRNA decay represented, they do not dominate the theme, so the neural development label is a reasonable summary with moderate confidence.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0021943","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0000288","count":2},{"id":"GO:0002181","count":2}]},{"hash":"378708036255669155","title":"Actin Cytoskeleton Remodeling and Migration","description":"The dominant terms point to actin cytoskeleton organization and assembly of lamellipodia and filopodia, which underpin cell migration. Regulation of Rho and Ras signaling aligns with actin dynamics, supporting a cohesive theme of cytoskeletal remodeling to drive motility and morphogenesis, with some developmental contexts like heart formation, myelin maintenance, and NK T cell differentiation appearing as broader roles in these processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0032287","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1012613093369243498","title":"Branched-chain amino acid metabolism","description":"The top terms show multiple mentions of L/isoleucine, L/leucine, and L/valine biosynthesis and related catabolic processes, indicating a clear focus on branched-chain amino acid metabolism. There are also redox/detox and other miscellaneous biosynthetic terms, but the BCAA theme is dominant. Confidence: Medium","confidence":"","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0009097","count":2},{"id":"GO:0009099","count":2},{"id":"GO:0019478","count":2}]},{"hash":"2281719149188741984","title":"Platelet signaling and redox regulation","description":"The strongest signal is platelet aggregation, supported by endocytosis and protein interaction/assembly terms (oligomerization, autophosphorylation), pointing to platelet signaling and vesicle trafficking. Redox homeostasis and cellular oxidant detoxification highlight oxidative stress management, a common facet of platelet activation. Some terms indicate broader metabolism (glucose response, UTP biosynthesis) that can intersect with platelet function and immune signaling, but the core theme centers on platelet-related signaling with associated trafficking and redox balance.","confidence":"Medium","size":10,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":4},{"id":"GO:0006897","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0030819","count":2}]},{"hash":"1846326859404210223","title":"Steroid and Lipid Metabolism with Xenobiotic Detox","description":"The terms cluster around lipid- and steroid-derived biosynthesis (calcitriol, aldosterone, brassinosteroids, oxylipin) and related detoxification/catabolic pathways (omega-oxidation, xenobiotic and coumarin metabolism), suggesting a cohesive theme of lipid hormone production and xenobiotic processing, despite a few outlier terms.","confidence":"Medium","size":10,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":8},{"id":"GO:0036378","count":7},{"id":"GO:0060065","count":7},{"id":"GO:0032342","count":7},{"id":"GO:0031408","count":7}]},{"hash":"949735649685137470","title":"Telomere maintenance and mitotic regulation","description":"The cluster is dominated by GO terms linking mitotic processes (spindle assembly, regulation of CDK activity, chromatid cohesion) with telomere maintenance (telomere capping, telomere maintenance via telomerase). This suggests a cohesive theme around cell cycle control synchronized with telomere integrity. A few outliers (fat cell differentiation, muscle stretch response, mRNA processing) are more peripheral and do not override the central mitosis/telomere pattern.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904908","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0035994","count":5},{"id":"GO:1904355","count":5}]},{"hash":"1731586404405256153","title":"Vascular development and hypoxia response","description":"This cluster is enriched for vascular-related GO terms such as coronary artery morphogenesis, blood vessel remodeling, and cellular response to hypoxia, plus vasoconstriction regulation, pointing to a shared theme of blood vessel development and function, potentially modulated by hypoxic signals. Some terms (memory, visual learning, nucleosome disassembly) are less directly related and may reflect annotation breadth or pleiotropy, but the strongest signal ties to vascular development and hypoxia response.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0045907","count":2}]},{"hash":"1155772241533046293","title":"RNA Pol II Transcription Regulation","description":"This cluster\u2019s top terms are driven by DNA-templated transcription and negative regulation of transcription by RNA polymerase II, indicating a core transcriptional regulatory role. A few biosynthetic terms (CoA, calcitriol, aldosterone) appear less prominently and may reflect multifunctionality or annotation noise, but transcription regulation remains the clearest common theme.","confidence":"Medium","size":10,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070895","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046022","count":2},{"id":"GO:0007576","count":2}]},{"hash":"193749288924189132","title":"Cerebellar development and neural signaling","description":"The top terms center on cerebellar cortex formation and Bergmann glial differentiation, indicating cerebellar development. Supporting terms involve neural signaling (insulin receptor signaling, T cell receptor signaling as a broad signaling reference) and membrane trafficking (caveolin-mediated endocytosis), plus axon regeneration and proliferation regulation, which can be relevant in developing neural tissue. Overall, the strongest cohesive theme is cerebellar development with linked signaling and trafficking processes, though some terms are broader. ","confidence":"Medium","size":10,"edges":31,"triangles":53,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021697","count":7},{"id":"GO:0008286","count":7},{"id":"GO:0060020","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0045736","count":7}]},{"hash":"1479665059465366581","title":"Redox Homeostasis and Detox Metabolism","description":"The cluster prominently features GO terms tied to redox balance and detoxification, such as cell redox homeostasis and glutathione metabolic process, along with response to xenobiotic stimulus. Additional terms point to metabolic adjustments (thiamine and beta-alanine biosynthesis) that support cofactors and amino acid metabolism under stress. Together, these suggest a coherent theme of maintaining redox balance and detoxifying compounds, hence the label. Some terms (e.g., cell wall organization, aging) are less clearly connected and may reflect noise or cross-species annotations, contributing to a medium confidence.","confidence":"Medium","size":10,"edges":31,"triangles":49,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0002931","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0010269","count":1},{"id":"GO:0009228","count":1}]},{"hash":"343346265662197465","title":"Neural signaling, adhesion, and myelination","description":"This cluster centers on neuronal communication and organization: receptor clustering and regulation of excitatory postsynaptic potential point to synaptic signaling, while adherens junction localization and myelin sheath localization imply cell adhesion and neural tissue organization; additional terms on Rho/JNK signaling and centrosome localization fit broader neuronal cell regulation. Together, they describe proteins involved in synaptic function, neural cell adhesion, and myelination-related processes.","confidence":"High","size":10,"edges":23,"triangles":23,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":8},{"id":"GO:2000821","count":8},{"id":"GO:2000670","count":7},{"id":"GO:0035176","count":7},{"id":"GO:2000463","count":7}]},{"hash":"760745685695322424","title":"Innate Immune Signaling and Caveolin-Mediated Endocytosis","description":"The top GO terms are dominated by innate immune processes (defense response to Gram-positive bacteria, innate immune response, IL-1 signaling) and a specific endocytic pathway (caveolin-mediated endocytosis). Although neuronal development terms appear, the strongest and most recurrent themes center on immune signaling and endocytosis, suggesting this cluster represents innate immune responses linked to endocytic uptake.","confidence":"Medium","size":10,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050830","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0072584","count":9},{"id":"GO:0002088","count":9},{"id":"GO:0021954","count":9}]},{"hash":"1731765670404006121","title":"Angiogenesis Regulation and Vascular Inflammation","description":"The cluster centers on regulation of angiogenesis (both positive and negative), endothelial and platelet activation, and inflammatory signaling (e.g., interleukin-1), with ERK pathway involvement and proliferation signals. While there are a couple of developmental terms (inner ear development, organ regeneration), the strongest shared theme among the terms is vascular remodeling coupled with inflammatory response, suggesting proteins that coordinate angiogenesis and vascular inflammation.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0048839","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0048661","count":3}]},{"hash":"230328207242496997","title":"Neural development and signaling","description":"This cluster has terms tied to neural development (cerebellar cortex formation, Bergmann glial differentiation, regulation of axon regeneration) and signaling pathways (insulin and T cell receptor signaling, caveolin-mediated endocytosis affecting signaling), with some cell cycle-related terms reflecting progenitor regulation in neural contexts. This combination supports labeling as neural development and signaling.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045736","count":10},{"id":"GO:0034501","count":10},{"id":"GO:2001275","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0021697","count":9}]},{"hash":"1488681672189997868","title":"Regulation of signaling and organelle trafficking","description":"These proteins appear linked by a theme of regulating cellular signaling and the dynamics/trafficking of organelles, with autophagy-related Cvt targeting and lysosomal organization at the center, alongside diverse regulatory processes such as dopamine receptor signaling, PKA signaling, and morphogenesis in neural/osseous contexts. The cluster does not map to a single pathway but rather to broader modulation of signaling and intracellular organization, justifying a high-level label focusing on signaling regulation and organelle trafficking.","confidence":"Medium","size":10,"edges":14,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032258","count":9},{"id":"GO:0097212","count":9},{"id":"GO:0060161","count":9},{"id":"GO:0050885","count":9},{"id":"GO:0010738","count":9}]},{"hash":"1608949370242720687","title":"Stress-Driven Cell Cycle Regulation","description":"The GO terms point to a cluster centered on cell cycle control and DNA damage checkpoints (negative regulation of cell population proliferation; mitotic G1 DNA damage checkpoint signaling; ubiquitin ligase regulation in mitosis), complemented by transcriptional activity. They also reflect stress and immune-related responses (cellular response to cadmium ion; defense response to Gram-positive bacterium) and signals related to apoptosis and nutrient-stress\u2013driven growth changes (death-inducing signaling complex assembly; invasive growth in response to glucose limitation). This pattern suggests a cohesive theme of coordinating stress responses with cell cycle regulation and survival, rather than unrelated processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0008542","count":3},{"id":"GO:0031571","count":3},{"id":"GO:0051436","count":3}]},{"hash":"1564109423280287254","title":"T cell development and adaptive immunity","description":"Explanation: The top GO terms cluster around T cell differentiation in thymus, T cell homeostasis, and adaptive immune response, with lymph node development and B cell homeostasis reinforcing a lymphoid-immunity theme. While a few terms touch angiogenesis or xenobiotic response, the dominant signal is T cell\u2013centric maturation and regulation within the adaptive immune system.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033077","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0001525","count":3}]},{"hash":"2025240936067295206","title":"Vacuolar transport and SNARE regulation","description":"The GO terms cluster around proton transmembrane transport and vacuolar acidification (V-ATPase\u2013related), with several entries about regulation of SNARE complex assembly, endocytosis, and GTPase activity, suggesting a common theme in controlling vesicle trafficking and vacuolar proton transport.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0035544","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0009826","count":2},{"id":"GO:1900235","count":1}]},{"hash":"2035680187368990838","title":"SNARE-Mediated Vesicle Trafficking and Exocytosis","description":"This cluster is dominated by GO terms for ER-to-Golgi and intra-Golgi transport, Golgi ribbon formation, vesicle fusion with the Golgi, and SNARE complex assembly, identifying a core vesicle trafficking/exocytosis module. The presence of exocytic insertion of postsynaptic receptors, long-term synaptic potentiation, acrosome reaction, and cornified envelope assembly points to secretory processes across diverse cell types. Overall, the shared theme is membrane trafficking and vesicle fusion in secretory pathways, making this label representative.","confidence":"High","size":10,"edges":36,"triangles":65,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":10},{"id":"GO:0090161","count":10},{"id":"GO:0048280","count":10},{"id":"GO:0060291","count":10},{"id":"GO:0098967","count":10}]},{"hash":"1636590542517349530","title":"Innate Immune Recognition and Phagocytosis Signaling","description":"This cluster is dominated by GO terms related to innate immune recognition (detection of lipoteichoic acid) and response, along with signals involved in phagocytosis (Fc-gamma receptor signaling pathway) and immune cell interactions (T cell costimulation, NK cell regulation). The presence of a coreceptor-mediated virion attachment term suggests additional roles in pathogen interaction. A couple of terms related to cardiac function and adipocyte proliferation are present but appear less central to the core immune theme, possibly reflecting pleiotropy or annotation overlap.","confidence":"Medium","size":10,"edges":28,"triangles":31,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070392","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0070352","count":6},{"id":"GO:0086091","count":6},{"id":"GO:0046814","count":6}]},{"hash":"301646826212332327","title":"GPCR-Mediated Signaling and Chemotaxis","description":"The top GO terms cluster around GPCR-driven signaling: activation of adenylate cyclase, phospholipase C\u2013activating serotonin receptor signaling, and opsin-mediated signaling all point to GPCR-mediated transduction. In addition, several terms involve chemotaxis and inflammatory regulation (IL-8 production, eosinophil and astrocyte chemotaxis) and vascular/neural contexts (blood pressure regulation, visual learning), which are processes commonly guided by GPCR signaling. This suggests a coherent theme of GPCR signaling coordinating neural, immune, and vascular responses across tissues.","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":10},{"id":"GO:0035106","count":10},{"id":"GO:0007190","count":10},{"id":"GO:2000484","count":10},{"id":"GO:0007208","count":10}]},{"hash":"1781896258861111857","title":"Neural development and apoptosis","description":"The top GO terms include forebrain development and neuron apoptotic process, indicating a neural-development focus, alongside multicellular growth and skeletal development, suggesting broader developmental roles. Additional terms like actin filament bundle assembly and ER-to-Golgi transport point to cytoskeletal dynamics and vesicular trafficking that support developmental processes. Taken together, the cluster appears to center on neural development with associated apoptotic regulation, though broader development-related terms exist, so the label captures the strongest signal while acknowledging broader context.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0051402","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0043547","count":3}]},{"hash":"362321820013993319","title":"Unknown","description":"The top GO terms span neural sensing (temperature stimulus, pain, visual learning) and metabolic/signaling processes (diet-induced thermogenesis, calcium release, GPCR and Rho signaling, electron transport, blood pressure regulation, cell proliferation). With no edge connections and no cohesive unifying function, there isn\u2019t a clear single theme tying these proteins together, so the label Unknown is most appropriate.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0002024","count":5},{"id":"GO:0051209","count":4},{"id":"GO:0045777","count":4}]},{"hash":"1305441593587393818","title":"Neural sensory signaling and perception","description":"This cluster is dominated by GO terms related to neural sensory processes (visual perception, visual learning, sensory and dopaminergic transmission, pain perception, cocaine-related behaviors), suggesting a cohesive theme of neural signaling and sensory processing. Some terms also touch on cardiovascular and inflammatory signaling (heart development, blood pressure, prostaglandin response, macrophage chemotaxis), indicating broader signaling interactions that can modulate neural function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0001963","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0010759","count":6}]},{"hash":"152127974519160418","title":"Cardiac development and calcium signaling","description":"The terms show a coherent focus on heart-related development and function, such as left ventricular cardiac muscle tissue morphogenesis, regulation of heart rate by cardiac conduction, and calcium transport/adhesion, suggesting a cluster centered on cardiomyocyte development and calcium-mediated signaling. While there are broader development terms (multicellular development, skin development) and other unrelated processes (CO2 detection, pain sensing), the strongest common theme is cardiac morphogenesis and calcium-dependent processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0002724","count":4},{"id":"GO:0003031","count":4}]},{"hash":"1723695859666169904","title":"Auditory system development and hair cell differentiation","description":"The top GO terms center on sensory perception of sound and inner ear receptor cell differentiation, with supporting terms like hair follicle development and related signaling pathways, implying a cohesive theme around ear development and hair cell lineages. Some terms refer to other organ developments, but the dominant signal is auditory system development.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0060113","count":3},{"id":"GO:0001942","count":3},{"id":"GO:0030308","count":2},{"id":"GO:0048565","count":2}]},{"hash":"1915044625189578705","title":"Axon growth and synapse formation regulation","description":"This cluster is dominated by neural development terms: axonal fasciculation and positive regulation of synapse assembly, plus regulators of axon regeneration and sprouting. Calcium signaling and mechanotransduction terms support neuronal connectivity and response to stimuli, while a few immune-related terms appear ancillary. Overall, the theme is neural connectivity formation and regeneration modulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0051607","count":3}]},{"hash":"123947760911134781","title":"Lipid metabolism and organelle organization","description":"This cluster centers on lipid biosynthesis and the maintenance of organelle structure, with terms for triglyceride synthesis, lipid droplet organization, and ER and mitochondrial membrane-related processes. While there are a few other signals (transcription regulation and cell-cycle control), the dominant themes point to lipid handling and organelle dynamics as the unifying function. Overall, the proteins appear linked to metabolic organization at the ER and mitochondrial interfaces and lipid storage.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0070940","count":2},{"id":"GO:0010867","count":2},{"id":"GO:2000134","count":2}]},{"hash":"902609456436550245","title":"Embryonic Organogenesis and Patterning","description":"These proteins are collectively annotated with GO terms centered on embryonic development, tissue morphogenesis, and organ formation across multiple tissues (mesoderm development, cartilage morphogenesis, roof of mouth development, hair follicle morphogenesis, placenta/endocrine development, and left-right patterning). The cohesive theme is embryogenesis and patterning rather than a single biochemical pathway, suggesting roles in orchestrating tissue formation and organogenesis. Despite no observed edges in this cluster, the shared developmental functions support this interpretation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0031069","count":9},{"id":"GO:0060972","count":9}]},{"hash":"1649783697469724309","title":"TNF signaling and NF-kappaB regulation","description":"The top GO terms are dominated by tumor necrosis factor-mediated signaling and negative regulation of NF-kappaB transcription factor activity, suggesting an inflammatory signaling theme. A few other terms (ergothioneine biosynthesis, replication fork processing) seem unrelated or noisy, so the core association is partial, yielding a moderate level of confidence.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0032088","count":2},{"id":"GO:1903253","count":1},{"id":"GO:1903255","count":1},{"id":"GO:0052704","count":1}]},{"hash":"818582292712204945","title":"Transmembrane nutrient transporters","description":"This cluster is dominated by GO terms for transmembrane transport of various nutrients (glucose, pantothenate, biotin, myo-inositol) and sodium ions, suggesting a coherent theme of membrane transport proteins handling diverse substrates; a few lipid biosynthesis terms appear as minor-associated functions, but the transporter signal is strong.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":4},{"id":"GO:0015887","count":4},{"id":"GO:0008292","count":4},{"id":"GO:0071436","count":4},{"id":"GO:0015878","count":4}]},{"hash":"604083574835616964","title":"Rho-regulated development and morphogenesis","description":"The cluster is dominated by terms related to organ development (heart, cerebral cortex, lens) and cell morphogenesis, with regulation of Rho protein signaling as a common thread influencing cell shape, migration, and endocytosis. While there are additional signals for DNA replication and innate immunity, the recurring theme ties to Rho-mediated developmental morphogenesis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0000902","count":4},{"id":"GO:0007095","count":4},{"id":"GO:0006260","count":4}]},{"hash":"2182865650235409865","title":"ER protein folding and redox homeostasis","description":"The cluster is driven by GO terms for ER-associated protein folding (GO:0034975), protein repair, and redox processes (cell redox homeostasis and deglutathionylation), with some transport-related terms. This points to a theme of ER protein quality control and redox-regulated protein maintenance rather than unrelated functions. ","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0055114","count":1},{"id":"GO:0034975","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0030091","count":1}]},{"hash":"133817198532816947","title":"Embryogenesis and organogenesis","description":"The top GO terms are all related to embryonic development and tissue formation, including epithelial-to-mesenchymal transition in heart structures, left-right patterning, cartilage morphogenesis, placental and trophoblast differentiation, and endocrine system development. A few terms hint at general transcription control and cytoskeletal assembly (RNA polymerase II elongation and tubulin complex assembly), supporting developmental processes. Together they suggest a developmental program governing organ formation and lineage specification rather than a single specific function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0003323","count":1}]},{"hash":"1294284002187091497","title":"Unknown","description":"The top GO terms span neural development and function (substantia nigra development, sensory perception of sound, long-term neuronal synaptic plasticity) as well as diverse immune and cellular signaling processes (antibacterial humoral response, B-1a B cell differentiation, hemocyte proliferation, PKC signaling, transcytosis, membrane raft polarization, extrinsic apoptotic signaling). This mixture does not reveal a single cohesive biological theme or process common to all proteins in the cluster, so a concise, representative label cannot be determined.","confidence":"","size":10,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019731","count":2},{"id":"GO:0021762","count":1},{"id":"GO:0001766","count":1},{"id":"GO:0045056","count":1},{"id":"GO:0007605","count":1}]},{"hash":"1776319885469693825","title":"Adipogenesis and apoptosis linked to lipid metabolism","description":"The dominant terms are fat cell differentiation and hepatocyte apoptotic process, alongside glycerophospholipid catabolic process, which together point to adipogenesis and lipid turnover with regulated cell death; ubiquitination and cell growth support this regulatory context. Some terms (pain perception) seem more general stress signals and are less central.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0045444","count":2},{"id":"GO:0035508","count":2},{"id":"GO:0016477","count":2}]},{"hash":"913017627409668029","title":"Embryonic development and tissue differentiation","description":"The GO terms point to diverse differentiation and morphogenesis events across embryogenesis\u2014fat cell differentiation, pancreatic endocrine development, cartilage morphogenesis, placental development, left-right patterning, and endocardial cushion EMT\u2014supported by intracellular signaling, indicating a cluster of proteins involved in broad developmental programs rather than a single pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1876845324669791018","title":"Cell fate specification and tissue differentiation","description":"The top GO terms point to diverse cell fate commitments (glial, pancreatic PP cells, adrenal chromaffin cells) and tissue morphogenesis (muscle, umbilical cord, stomatal development), plus regulation of responses related to differentiation processes. This suggests the proteins in this cluster collectively participate in cell fate specification and tissue differentiation across multiple lineages rather than a single, cohesive function. ","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2001038","count":9},{"id":"GO:0048712","count":9},{"id":"GO:0060415","count":7},{"id":"GO:2000820","count":7},{"id":"GO:0003329","count":7}]},{"hash":"1531241822189611696","title":"Embryonic development and organ morphogenesis","description":"These GO terms cluster around diverse embryonic development processes across multiple organs (retinal ganglion axon guidance, rhombomere morphogenesis, somite specification, inner ear development, hindlimb morphogenesis, uterus development, heart-related AV node and Purkinje differentiation). The common theme is developmental patterning and organ morphogenesis rather than a single tissue or pathway, suggesting a general developmental program for the cluster.","confidence":"High","size":9,"edges":11,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":3},{"id":"GO:0021569","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0003168","count":3},{"id":"GO:0060928","count":3}]},{"hash":"252607329190587185","title":"Lamellipodium dynamics and cell signaling","description":"The top GO terms cluster around lamellipodium assembly/morphogenesis, Rho signaling, and store-operated calcium channel activity, with supporting terms for broader signaling pathways (insulin signaling, NF-kappaB/p38 regulation) and tissue homeostasis. This points to a group of proteins coordinating cytoskeletal remodeling (lamellipodium dynamics) with signaling networks that govern cell movement and responses to stimuli, rather than a single specialized function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":2},{"id":"GO:0032237","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0032496","count":2},{"id":"GO:2000394","count":2}]},{"hash":"554810782844535152","title":"Embryonic organogenesis","description":"The GO terms point to development and morphogenesis of multiple organs during embryogenesis (pituitary, heart, pancreas, uterus, inner ear, palate, hindlimb, etc.), plus associated tissue differentiation. This suggests a broad, cross-organ developmental theme rather than a single tissue-specific function, so the label \"Embryonic organogenesis\" fits well.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":4},{"id":"GO:0003148","count":4},{"id":"GO:0060065","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0035116","count":3}]},{"hash":"2063178957243550189","title":"Methylation Enzymes and Chromatin Modification","description":"Top terms indicate a focus on methyltransferase activities (peptidyl-lysine methylation/dimethylation/trimethylation, N-terminal methylation, rRNA methylation) alongside chromatin/DNA regulation processes (rDNA heterochromatin formation, DNA methylation in gamete generation, regulation of DNA binding) and a DNA damage response pathway (intrinsic apoptotic signaling in response to DNA damage). This combination points to a cohesive role for methylation enzymes in chromatin/RNA/DNA modification, hence the label. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0043046","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0018013","count":2},{"id":"GO:0018023","count":2}]},{"hash":"257076313555768036","title":"DNA replication and repair","description":"Most of the top GO terms cluster around DNA replication and DNA damage response (gamma radiation response, mitochondrial double-strand break repair via homologous recombination, and DNA replication). There are a few outliers related to development, magnetoreception, and gravitaxis, but the dominant theme is genome maintenance. Confidence: High.","confidence":"","size":9,"edges":24,"triangles":27,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0071480","count":2},{"id":"GO:0032508","count":2},{"id":"GO:0097552","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1699235450169759480","title":"TCA Cycle and Xenobiotic Response","description":"The cluster\u2019s top GO terms point to central metabolism (oxaloacetate metabolism and the TCA cycle) and a response to xenobiotic stress, with some additional, more distant terms related to development and adhesion. This suggests a core metabolic and stress-response theme rather than a single cohesive developmental function, so a label focusing on metabolism and xenobiotic response is most representative.","confidence":"Medium","size":9,"edges":29,"triangles":45,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006107","count":3},{"id":"GO:0006099","count":3}]},{"hash":"1118635293118991904","title":"RNA Pol II Transcription Initiation and mRNA Surveillance","description":"The cluster\u2019s top GO terms converge on transcription initiation at RNA polymerase II promoters and promoter clearance, alongside nonsense-mediated decay of nuclear-transcribed mRNA, indicating a theme of transcriptional regulation linked to mRNA quality control; peripheral terms about development and stress responses exist but do not override this core link.","confidence":"Medium","size":9,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":6},{"id":"GO:0032508","count":5},{"id":"GO:0048568","count":4},{"id":"GO:0006367","count":4},{"id":"GO:0001666","count":4}]},{"hash":"772252868591245083","title":"Heart development and valve morphogenesis","description":"The terms are dominated by cardiac morphogenesis, including atrioventricular and aortic valve formation, atrial and ventricular septum development, and outflow tract morphogenesis, plus pericardium morphogenesis. There are a few other organ development terms (lung, roof of mouth), but the strongest and most consistent signal is cardiac development and valve/septum formation, making this an intuitive label for the cluster.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":3},{"id":"GO:0060021","count":2},{"id":"GO:0045662","count":2},{"id":"GO:0003181","count":2},{"id":"GO:0042694","count":2}]},{"hash":"1520765676104360023","title":"Developmental differentiation and tissue morphogenesis","description":"The top GO terms point to differentiation of multiple tissues (neuron, cardiac, pancreatic D cells, plant ovule) and morphogenetic processes, complemented by cell-matrix adhesion, cell-cell junction organization, and actin remodeling. This suggests a shared theme of development and structural tissue formation across diverse contexts, with occasional polarity/localization references (oskar mRNA). ","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":4},{"id":"GO:0048482","count":4},{"id":"GO:0055011","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0035849","count":4}]},{"hash":"1933269010246171164","title":"Unknown","description":"The top GO terms cover antibiotic biosynthesis, plant pigment biosynthesis, xenobiotic metabolism, glycosylation, cell wall organization, cell cycle, and cell shape regulation, spanning diverse organisms and pathways with no clear common function, so no cohesive theme is evident for this cluster.","confidence":"","size":9,"edges":8,"triangles":3,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0070980","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0009718","count":3},{"id":"GO:0033485","count":3}]},{"hash":"562231832235473495","title":"Unknown","description":"The terms span apical protein localization, endothelial barrier regulation, Wnt and S1P signaling, marginal zone B cell differentiation, and several obscure ergothioneine/selenoneine biosynthetic processes, with no clear, single functional theme tying all proteins together. Many entries appear unrelated or obsolete, making a coherent cluster label unlikely.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045176","count":2},{"id":"GO:0002315","count":2},{"id":"GO:1903142","count":2},{"id":"GO:1903253","count":2},{"id":"GO:1903255","count":2}]},{"hash":"200712306683699082","title":"Apoptosis and organ development signaling","description":"The top GO terms point to both programmed cell death (extrinsic apoptotic signaling, apoptotic DNA fragmentation, nurse cell apoptotic process) and tissue morphogenesis/organ development (hippo signaling, heart development, head involution). While some terms touch on immune signaling (B cell homeostasis, cytokine signaling), the dominant theme is signaling pathways that regulate apoptosis and developmental processes across tissues. This supports a label centered on apoptosis and organ development, with moderate confidence due to some immune-related terms that add noise. ","confidence":"Medium","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001782","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0009749","count":3},{"id":"GO:0006309","count":3},{"id":"GO:0045476","count":3}]},{"hash":"2097238766955755448","title":"Developmental morphogenesis regulators","description":"The GO terms center on developmental processes and tissue differentiation (left-right patterning, cartilage morphogenesis, lens fiber differentiation, pancreatic development) with involvement of TGF-beta signaling and EMT, suggesting a theme of development and morphogenesis regulation; some terms are broader cellular processes but do not override the primary developmental signal.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008285","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0001845","count":4},{"id":"GO:0070306","count":4},{"id":"GO:2000060","count":4}]},{"hash":"1668433855251619814","title":"Retroviral life cycle and latency","description":"The top GO terms point to retroviral infection steps: entry into host, RNA-templated DNA synthesis (reverse transcription), establishment of integrated proviral latency, viral replication and release, and related host responses. This cohesive set suggests a cluster driven by retroviral life cycle and latency processes.","confidence":"High","size":9,"edges":4,"triangles":1,"max_degree":3,"top_function":"protein folding","top_go_terms":[{"id":"GO:0075713","count":7},{"id":"GO:0071492","count":7},{"id":"GO:0019076","count":7},{"id":"GO:0030260","count":7},{"id":"GO:0006278","count":7}]},{"hash":"2247132264901815388","title":"PNS Schwann cell development and myelination","description":"Most of the top GO terms point to Schwann cell biology and peripheral nervous system myelination (Schwann cell development and PNS myelination). Calcium sensing and neural signaling (detection of calcium ion) support glial function, with additional terms suggesting immune-regulatory contexts (negative regulation of inflammatory response, negative regulation of T cell mediated cytotoxicity) and tissue remodeling (lymphangiogenesis). Together, they suggest a cluster centered on Schwann cell development and peripheral myelination, with some immune-associated signals that can accompany nerve development or injury.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022011","count":9},{"id":"GO:0070940","count":9},{"id":"GO:0007114","count":9},{"id":"GO:0014898","count":9},{"id":"GO:2000002","count":9}]},{"hash":"248482937380718581","title":"Regulation of cell signaling pathways","description":"The Top Terms center on both positive and negative regulation of signaling-related processes, including cAMP-dependent kinase activity, ERK cascade, and PDGF receptor signaling, with additional terms touching on synapse assembly, linoleic acid response, and cholesterol metabolism. This pattern suggests the proteins act as regulators across multiple signaling axes rather than a single pathway, justifying a label focused on signaling regulation with medium confidence.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:2000481","count":2},{"id":"GO:2000860","count":2},{"id":"GO:0070543","count":2},{"id":"GO:0031953","count":2}]},{"hash":"2177403909955748977","title":"RNA processing and ubiquitin-regulated immune signaling","description":"Top terms indicate RNA processing and ribosome biogenesis (rRNA maturation and mRNA splicing) along with ubiquitin-dependent protein turnover, plus immune-related processes (innate immunity, B/T cell homeostasis, NF-\u03baB). The combination suggests a cluster of proteins involved in RNA processing and ubiquitin-mediated regulation that together influence immune signaling and homeostasis.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0001782","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042787","count":2}]},{"hash":"1550512590184581769","title":"Chromatin assembly and heterochromatin organization","description":"These proteins are concentrated around chromatin-related processes: nucleosome assembly, heterochromatin organization, regulation of nucleus size, and establishment of protein localization to chromatin, with some historical histone modification terms. This pattern points to chromatin organization and epigenetic regulation as the cluster\u2019s core function, while the two low-frequency terms likely reflect noise. ","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":7},{"id":"GO:0070828","count":7},{"id":"GO:0097298","count":7},{"id":"GO:0080182","count":7},{"id":"GO:0098532","count":7}]},{"hash":"1877826928686980224","title":"Embryonic Neural and Cardiac Development","description":"The cluster is dominated by developmental GO terms, notably motor neuron axon guidance, axon extension, neuron migration, organ induction, and heart/pulmonary myocardium development, pointing to coordinated embryonic formation of neural and cardiac tissues. Additional terms on cranial skeleton morphogenesis and multicellular organism development reinforce this broad developmental theme, suggesting a focus on early organogenesis with neural and cardiac components.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001759","count":7},{"id":"GO:0008045","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0048675","count":6},{"id":"GO:0001764","count":6}]},{"hash":"136352385598021107","title":"Embryogenesis and Organ Differentiation","description":"The enriched GO terms point to embryonic development and differentiation across multiple tissues and organs (somatic embryogenesis, left-right pattern formation, cartilage morphogenesis, trophoblast and pancreatic cell development, endocrine system development). The common thread is broad developmental processes rather than a single function, so the label reflects a general developmental theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010262","count":1},{"id":"GO:0045466","count":1},{"id":"GO:0055046","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060972","count":1}]},{"hash":"537340457071945176","title":"Innate and adaptive immune signaling","description":"The GO terms span both innate (type I interferon signaling, innate immune response, neutrophil chemotaxis) and adaptive (B cell receptor signaling) immunity, plus downstream signaling like ERK cascade, calcium release, and actin remodeling, indicating a cohesive immune signaling cluster across cell types and effector pathways.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060337","count":4},{"id":"GO:0042267","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0051281","count":3},{"id":"GO:0030593","count":3}]},{"hash":"1361347853983631932","title":"Protein acetylation and N-terminal modifications","description":"The top GO terms are dominated by acetylation-related processes (N-terminal propionylation, N-terminal methionine acetylation, peptidyl-lysine N6-acetylation, histone H4 acetylation), suggesting the cluster centers on post-translational acetylation. Other terms like mycothiol, arginine, melatonin, and spermine metabolism, and chromatin dynamics are more diverse and less cohesively related, so the label reflects the strongest shared theme but acknowledges broader associations.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061606","count":8},{"id":"GO:0006348","count":8},{"id":"GO:0010125","count":8},{"id":"GO:0017196","count":8},{"id":"GO:0006526","count":8}]},{"hash":"113574807341272532","title":"Cytoskeleton-driven transport and exocytosis","description":"The top terms highlight microtubule-related processes (microtubule bundle formation, microtubule polymerization) and centrosome localization, pointing to cytoskeletal organization. In addition, exocytosis of neurotransmitter and various transport terms suggest involvement in vesicle trafficking and membrane transport. While there is some noise from other terms (e.g., mRNA decay), the overall pattern supports a theme of cytoskeleton-associated transport and vesicle trafficking.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":2},{"id":"GO:0070966","count":2},{"id":"GO:0015699","count":1},{"id":"GO:0043251","count":1},{"id":"GO:0015700","count":1}]},{"hash":"1912440186991007433","title":"Actin-driven cytoskeleton remodeling and adhesion","description":"The cluster is dominated by GO terms for actin dynamics (filopodium assembly, actin polymerization, cytoskeleton rearrangements), cell shape/polarity, and adhesion/spreading, all coordinated by small GTPases. While additional terms touch signaling pathways (Wnt, T cell receptor, PI3K), the core signal is actin-based cytoskeletal remodeling coupled with cell adhesion and polarity, suggesting roles in migration and morphological regulation.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0046847","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0090263","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0007264","count":5}]},{"hash":"1046172119121024589","title":"Regulation of Synaptic Vesicle Cycling","description":"The strongest GO signals are regulation of synaptic vesicle exocytosis and endocytosis, pointing to proteins involved in vesicle trafficking and release at the synapse. While other terms mention cardiac action potentials and development (substantia nigra), these appear peripheral to the main vesicle cycling theme, suggesting a primary role in presynaptic regulation of neural signaling.","confidence":"Medium","size":9,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0006919","count":2},{"id":"GO:0098910","count":2},{"id":"GO:0010881","count":2},{"id":"GO:0098907","count":2}]},{"hash":"543457062010677453","title":"Neuronal synaptic vesicle trafficking and endocytosis","description":"The top GO terms strongly point to vesicle trafficking and recycling, including endocytosis, Golgi\u2013endosome transport, multivesicular body sorting, synaptic vesicle maturation, and regulation of synaptic vesicle exocytosis, all within a neuronal context. A single cell-cycle term is less representative and apoptotic terms may reflect broader cell-survival signaling rather than cluster-specific function. Overall, the cluster seems tied to neuronal vesicle dynamics and endocytic pathways.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0071985","count":2},{"id":"GO:0034498","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0048260","count":2}]},{"hash":"1403412571738825395","title":"Vascular signaling and receptor trafficking","description":"This cluster shows terms tied to modulation of vascular signaling pathways (VEGF, integrin signaling) and endocytic processes (receptor internalization, lysosome localization), along with LDL-related responses and immune regulation in vascular contexts. The mix suggests proteins acting as modulators of signaling and vesicle trafficking in endothelial/vascular cells rather than core enzymatic roles.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":3},{"id":"GO:0071404","count":2},{"id":"GO:1900746","count":2},{"id":"GO:0043128","count":2},{"id":"GO:2000145","count":2}]},{"hash":"2020151216578090361","title":"Synaptic vesicle exocytosis and neurotransmission","description":"The top GO terms are dominated by neuronal secretion and signaling: synaptic vesicle exocytosis, neurotransmitter transport, regulation of neurotransmitter secretion, and positive regulation of synaptic plasticity, indicating a focus on neurotransmitter release and synaptic function. A few RNA processing/translation-regulation terms appear but at lower frequency, not defining the cluster. Overall, the proteins are best characterized by roles in synaptic vesicle\u2013mediated secretion and neurotransmission.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030073","count":2},{"id":"GO:0016079","count":2},{"id":"GO:0046928","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0006836","count":2}]},{"hash":"731541571671015854","title":"Neuronal projection development and microtubule dynamics","description":"This cluster is dominated by GO terms tied to neuron development (central nervous system neuron development, neuron projection development, memory) and microtubule-related processes (microtubule bundle formation, microtubule sliding), plus regulation of calcium signaling and axon extension, pointing to neurite/axon growth guided by microtubule dynamics.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010923","count":2},{"id":"GO:0001578","count":1},{"id":"GO:0007613","count":1},{"id":"GO:0021954","count":1},{"id":"GO:0050848","count":1}]},{"hash":"1384055817015638304","title":"Bacterial central metabolism and cell wall synthesis","description":"The cluster centers on core metabolic pathways (glycolysis, TCA, gluconeogenesis) and peptidoglycan biosynthesis with cell wall organization, plus translation and cell shape regulation\u2014points to a housekeeping bacterial metabolism coupled with cell wall biogenesis. The mixed signals (metabolism and cell wall processes) fit a bacterial-origin functional theme, though the translation term adds general housekeeping overlap. ","confidence":"Medium","size":9,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0006094","count":2}]},{"hash":"398658612498283323","title":"ER-Golgi Transport and Immune Development Signals","description":"The cluster shows a focus on ER-to-Golgi vesicle transport, paired with immune and developmental regulation terms (regulation of T cell activation, myeloid differentiation, endodermal fate commitment, stem cell maintenance) and general gene expression changes. This suggests proteins linked to intracellular trafficking that modulates transcriptional programs in immune differentiation and cell fate decisions. A couple of older histone modification terms appear as historical annotations but do not define a separate functional theme here.","confidence":"Medium","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0050863","count":2},{"id":"GO:0010467","count":2}]},{"hash":"1400879415682864367","title":"Mitochondrial translation and DNA metabolism","description":"The terms point strongly to mitochondrial function: tRNA aminoacylation within mitochondria (threonyl, seryl, histidyl) and overall translation, plus mitochondrial DNA metabolic and DNA biosynthetic processes. These together suggest a cluster of proteins involved in mitochondrial protein synthesis and genome maintenance, with a minor nod to developmental expression. ","confidence":"High","size":9,"edges":11,"triangles":4,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0001701","count":4},{"id":"GO:0070159","count":3},{"id":"GO:0070158","count":3},{"id":"GO:0006427","count":3}]},{"hash":"598015740949029418","title":"Immune Activation and Signaling","description":"Many top GO terms cluster around innate and adaptive immune responses, including detection of lipoteichoic acid (bacterial recognition), mast cell degranulation, T cell costimulation, NK cell regulation, Fc-gamma receptor signaling in phagocytosis, and coreceptor-mediated virion attachment. A couple of terms about ion transport and adipocyte proliferation are peripheral and do not define the main theme, but the dominant signal is immune defense and communication between immune cells.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:2000649","count":4},{"id":"GO:0043303","count":3},{"id":"GO:0070392","count":3},{"id":"GO:0070352","count":3}]},{"hash":"335114522661348610","title":"Diverse Transmembrane Transporters","description":"The top GO terms indicate transmembrane transport of a variety of solutes (phosphate ion, glucose, D-xylose, vitamins, dehydroascorbic acid, sodium ions) and related processes like insulin-stimulated glucose import. This pattern points to a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate pathway. ","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:1904659","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0044381","count":3}]},{"hash":"1172979003938369543","title":"Lipid metabolism and adipogenesis","description":"The GO terms point to fatty acid biosynthesis and lipid-related processes (response to fatty acid, monounsaturated fatty acid biosynthetic process, sphingosine biosynthesis, cholesterol esterification, white fat cell differentiation), indicating a core theme of lipid metabolism and adipocyte differentiation. Some terms (spindle assembly, photoinhibition) are less relevant noise, but the dominant signal supports lipid synthesis and fat cell development.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":3},{"id":"GO:0007053","count":2},{"id":"GO:0010205","count":2},{"id":"GO:0034435","count":2},{"id":"GO:0046512","count":2}]},{"hash":"724149237727021427","title":"Mitochondrial Protein Import and Electron Transport","description":"The top GO terms are dominated by mitochondrial processes: protein insertion into the mitochondrial inner membrane, protein import into the mitochondrial matrix, and mitochondrial electron transport. This points to a cluster of proteins involved in mitochondrial protein targeting and core energy metabolism. Some related terms refer to chloroplast import or apoptotic signaling (likely noise or cross-annotation), but the strongest signals support a mitochondria-focused function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":3},{"id":"GO:0000002","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0045037","count":2},{"id":"GO:0032094","count":2}]},{"hash":"2015133316638630360","title":"Proteolysis and Peptide Hormone Catabolism","description":"The Top Terms point to protein catabolic processes, ubiquitin recycling, and hormone/peptide catabolism (e.g., bradykinin catabolic process). This indicates a functional cluster around protein degradation and peptide hormone breakdown, rather than synthesis or signaling. Some terms are obsolete or outliers (viral process, proton transport), but the dominant theme is proteolysis and turnover.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071432","count":2},{"id":"GO:0008340","count":2},{"id":"GO:0010992","count":2},{"id":"GO:0044257","count":2},{"id":"GO:0006627","count":2}]},{"hash":"1292240571991682404","title":"Kinase signaling and phosphorylation","description":"The top GO terms strongly point to phosphorylation-related processes, including protein autophosphorylation and peptidyl-histidine phosphorylation, which suggests kinase activity driving signaling. The oxidative stress term (cellular response to hydrogen peroxide) can be downstream of such signaling. Some terms like DNA replication and nucleotide biosynthesis are less tightly connected to signaling, but the phosphorylation-focused terms provide the clearest cohesive theme for this cluster.","confidence":"Medium","size":9,"edges":28,"triangles":40,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0006261","count":4},{"id":"GO:0030819","count":3},{"id":"GO:0051259","count":3},{"id":"GO:0046777","count":3}]},{"hash":"929736457388027836","title":"Bone and kidney development with ECM remodeling","description":"The terms cluster around skeletal ossification and bone trabecula formation, plus metanephric distal tubule development, with peptide cross-linking indicating extracellular matrix remodeling and angiogenesis modulation\u2014together pointing to tissue development and matrix maturation rather than a single pathway.","confidence":"Medium","size":9,"edges":22,"triangles":18,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0043931","count":7},{"id":"GO:0050731","count":6},{"id":"GO:0072221","count":6},{"id":"GO:0016525","count":6},{"id":"GO:0007275","count":5}]},{"hash":"1677814021385630718","title":"Synaptic regulation and actin cytoskeleton dynamics","description":"The top GO terms point to neuronal signaling (positive regulation of excitatory postsynaptic potential, social behavior) and structural remodeling (actin cytoskeleton organization, Rho signaling), with several terms related to cell junctions and localization, suggesting a cohesive theme around synapse development/maintenance and cytoskeletal regulation in neural tissue. Some terms (heart development, myelin localization) are less coherent with this theme, but the dominant signal supports a neural synaptic/cytoskeletal role.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0035176","count":3},{"id":"GO:2000463","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0035023","count":3}]},{"hash":"117954362093901226","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0050427","count":2},{"id":"GO:0040025","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0016578","count":1}]},{"hash":"63755229389229240","title":"Synaptic Signaling and Cell Polarity","description":"The Top Terms mostly point to neuronal signaling and synapse-related functions (receptor localization to synapse, calcium transport) along with cell junctions and polarity (zonula adherens, epithelial polarity). Some outliers (immune signaling and metabolic terms) suggest noise, but the core theme seems to be neural communication combined with junctional organization, rather than a single metabolic or immune pathway.","confidence":"Medium","size":9,"edges":24,"triangles":27,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0019933","count":4},{"id":"GO:0006015","count":3},{"id":"GO:1903760","count":3}]},{"hash":"619344819504922811","title":"Retinoid Metabolism and Signaling","description":"Most frequent GO terms in this cluster are retinol metabolic process, retinal metabolic process, and regulation of retinoic acid receptor signaling pathway, centering the cluster on vitamin A metabolism and retinoid signaling. While there are some hormone-related terms (androgen metabolic process, testosterone biosynthetic process) and other metabolic or stress-related terms (norepinephrine metabolic process, cellular response to cadmium ion, fructose biosynthetic process), they appear as secondary themes. Overall, the dominant connection is retinoid biology, suggesting these proteins function in vitamin A metabolism and retinoid signaling pathways.","confidence":"Medium","size":9,"edges":29,"triangles":47,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":5},{"id":"GO:0042574","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0008209","count":4},{"id":"GO:0061370","count":4}]},{"hash":"1251569016828718102","title":"Lipid-derived hormone biosynthesis and metabolism","description":"The majority of terms describe biosynthesis of steroid/lipid hormones (androgen, testosterone, aldosterone, calcitriol) and related lipid oxidation processes (omega-oxidation, oxylipins). Some terms are plant-specific (brassinosteroids) or detox-related (xenobiotic catabolic process), suggesting a broader lipid metabolism/hormone theme with cross-kingdom annotations. Thus the cluster is best described as lipid-derived hormone biosynthesis and metabolism.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":6},{"id":"GO:0061370","count":6},{"id":"GO:0036378","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0032342","count":5}]},{"hash":"1182740411083774306","title":"Neural development and synaptic signaling regulation","description":"The top GO terms point to regulation of signaling pathways (integrin activation, GTPase activation, tyrosine kinase activity) and neural tissue organization (synapse organization, neural plate elongation), suggesting a cluster focused on signaling-driven neural development and synaptic architecture, with related developmental processes visible as broader context.","confidence":"High","size":9,"edges":29,"triangles":46,"max_degree":8,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:0033625","count":4},{"id":"GO:0090630","count":4},{"id":"GO:0061098","count":4},{"id":"GO:0050821","count":4},{"id":"GO:0035640","count":3}]},{"hash":"1908067865458908980","title":"Leukocyte chemotaxis and activation signaling","description":"The top GO terms cluster around chemotaxis of various immune cells (neutrophils, monocytes, macrophages, eosinophils) and activation/adhesion processes (integrin activation, GTPase activation) with PI3K/AKT signaling. The inclusion of CD4+ T cell proliferation regulation and metabolic cues (glucose response) suggests coordinated immune cell recruitment and signaling. Together, these indicate a function in immune cell migration and activation.","confidence":"High","size":9,"edges":9,"triangles":3,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043491","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0048245","count":4},{"id":"GO:0002548","count":4},{"id":"GO:0048246","count":4}]},{"hash":"594126829244777903","title":"Cellular Stress Response and Metabolism","description":"The cluster shows enrichment for stress-related processes (cellular response to xenobiotic stimulus, JNK signaling, necroptosis, hyperosmotic response) alongside metabolic activities (glycogen and alpha-glucan catabolism, PRPP biosynthesis, metal homeostasis, and N-terminal methylation). This combination suggests proteins that participate in sensing and responding to cellular stress while coordinating metabolic pathways, hence a label that emphasizes both stress signaling and metabolism.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0030980","count":2},{"id":"GO:0005980","count":2}]},{"hash":"1467206862307491312","title":"Immune Synapse and Phagocytosis Regulation","description":"The cluster centers on innate immune signaling and control of phagocytosis and cytotoxic activity, as shown by terms like innate immune response, phagocytosis recognition, and regulation of macrophage activation, along with regulation of immune synapse assembly and cell-cell adhesion. This suggests a cohesive role in immune cell communication and actin-driven processes underlying phagocytic and cytotoxic functions. A few terms related to symbiont entry or tissue-specific adhesion appear peripheral but do not override the dominant theme of immune signaling and phagocytosis control.","confidence":"High","size":9,"edges":4,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":7},{"id":"GO:0002859","count":5},{"id":"GO:0043031","count":5},{"id":"GO:0090138","count":5},{"id":"GO:0043318","count":5}]},{"hash":"1497225220343853278","title":"Amino acid and lipid metabolism","description":"This cluster\u2019s top GO terms cluster around amino acid biosynthesis and catabolism (L-serine, L-valine), carnitine metabolism (biosynthesis and CoA-linked pathways), and fatty-acyl-CoA biosynthesis, with additional small-molecule biosynthesis/degradation terms. While there are a couple outliers (antibiotic response, dibenzothiophene catabolism), the dominant signal points to metabolism of amino acids and related lipids, supporting a cohesive, though broad, metabolic theme. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0046949","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0018896","count":2},{"id":"GO:0019254","count":2}]},{"hash":"1238764321940948223","title":"IGF-PI3K growth signaling and metabolism","description":"The top GO terms include IGF receptor signaling and the PI3K/AKT pathway, pointing to growth-related signaling. Additional terms touch metabolism (fatty acid oxidation), development, secretion, and migration, suggesting a broader theme of signaling and metabolic regulation rather than a single tight process. Therefore, this label highlights the core growth signaling axis, with an acknowledgment that some terms reflect related but distinct functions; confidence is Medium. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0045907","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0043491","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0032000","count":3}]},{"hash":"1291508048900888493","title":"Innate antibacterial defense (LPS response)","description":"The top GO terms are dominated by innate immune responses to bacteria and lipopolysaccharide, including defense against Gram-negative and Gram-positive bacteria and cellular response to LPS, indicating a shared antibacterial defense function. A few kidney morphogenesis terms appear but do not define the cluster\u2019s main theme, suggesting those annotations may be incidental. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050829","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0072287","count":6}]},{"hash":"1585762155176714672","title":"Plant cell wall polysaccharide biosynthesis and glycosylation","description":"The terms point to biosynthesis of plant cell wall polysaccharides (homogalacturonan, glucuronoxylan, mucilage) and related O-glycosylation processes, suggesting a cohesive theme of cell wall carbohydrate assembly and protein glycosylation; transport-related terms are ancillary. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0071805","count":2},{"id":"GO:0060081","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0016266","count":2}]},{"hash":"378267666882693654","title":"ER-Golgi vesicle trafficking and ER organization","description":"Top terms cluster around vesicle fusion/transport between the endoplasmic reticulum and Golgi, ER membrane organization, and regulation of ER-Golgi trafficking, indicating a cohesive theme of ER-to-Golgi transport and organelle maintenance. A couple of terms related to collateral sprouting and T cell signaling are present but appear less connected to the main ER-Golgi theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048279","count":2},{"id":"GO:0016320","count":2},{"id":"GO:0006890","count":2},{"id":"GO:1902953","count":2},{"id":"GO:1903358","count":2}]},{"hash":"1740643834183045772","title":"Phosphatase- and GTPase-mediated muscle signaling","description":"The Top Terms include tyrosine dephosphorylation and phosphatidylinositol dephosphorylation (phosphatase activities) and regulation of GTPase activity, suggesting signaling modules that control cytoskeletal dynamics and vesicle trafficking. Coupled with terms on muscle cell homeostasis and regulation of autophagosome/proteasomal degradation, the cluster appears to reflect phosphatase- and GTPase-driven signaling pathways that influence muscle cell function and proteostasis. Some broader terms (myelin assembly, mitotic cell cycle) indicate additional contexts, but the core theme centers on signaling mediated by phosphatases and GTPases in muscle-related processes.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035335","count":4},{"id":"GO:0043087","count":4},{"id":"GO:0046716","count":4},{"id":"GO:1902902","count":4},{"id":"GO:0000278","count":3}]},{"hash":"1896061613114970021","title":"Innate Immune Recognition and Leukocyte Signaling","description":"Based on the top GO terms, the cluster is enriched for defense against bacteria, innate immune response, lipoteichoic acid detection, T cell costimulation, NK cell regulation, and coreceptor-mediated virion attachment to host cells, all pointing to innate sensing and leukocyte communication. A few terms about heart rate regulation, fat cell proliferation, and sodium transporter activity seem less related and may reflect secondary associations or annotation noise. Overall, the core theme is immune recognition and signaling among leukocytes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0070392","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0070352","count":2}]},{"hash":"1197767151200218289","title":"ERK-mediated cell adhesion signaling","description":"The GO terms show a clear emphasis on cell adhesion and signaling: calcium-independent cell-matrix adhesion, receptor clustering, and integrin-mediated adhesion, plus an ERK1/ERK2 signaling cascade, suggesting a cohesive theme of adhesion-triggered signal transduction. Some terms (memory, extrinsic apoptotic signaling, brown fat differentiation, cholesterol response, dendrite regeneration, blood coagulation) are more peripheral, but they do not dominate the cluster. Overall, the label captures the strongest shared function among the proteins.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007613","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0050873","count":3},{"id":"GO:0071397","count":3},{"id":"GO:0031104","count":3}]},{"hash":"1759853141876778737","title":"Neural signaling and motor control","description":"Based on the top GO terms, the cluster is enriched for nervous system signaling (dopamine and norepinephrine secretion; synaptic potentiation) and motor-related outputs (adult walking behavior, skeletal muscle contraction). While there are a few outliers (cochlea development, amyloid-beta formation), the dominant theme ties neural signaling to movement control.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007628","count":7},{"id":"GO:1900273","count":7},{"id":"GO:1902004","count":7},{"id":"GO:0090102","count":7},{"id":"GO:0033603","count":7}]},{"hash":"1367538284756737371","title":"Neural signaling and sensory processing","description":"The top GO terms cluster around nervous system functions\u2014temperature and pain sensation, learning and conditioning, and serotonin/PLC signaling\u2014along with autonomic regulation and astrocyte activity, suggesting these proteins participate in neural signaling and CNS regulation rather than peripheral processes.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0008542","count":3},{"id":"GO:0035106","count":3}]},{"hash":"2196832452233260481","title":"Transcriptional Regulation and Development","description":"The top GO terms center on DNA-templated transcription and transcriptional regulation, with histone H3 acetylation pointing to epigenetic control. Developmental terms such as neural tube closure and skeletal system development suggest these proteins participate in gene expression programs guiding development, with some additional terms touching on stress and immune responses that can intersect with transcriptional regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0070059","count":4},{"id":"GO:2000601","count":4}]},{"hash":"165753239054159310","title":"Growth signaling and development regulation","description":"The terms point to a mix of signaling and growth-related processes: actin cytoskeleton regulation, tyrosine phosphorylation signaling, TORC1 and glucose-mediated signaling, ubiquitin ligase activity regulation, and DNA damage checkpoint signaling, plus developmental processes (seminiferous tubule development and neural tube closure) and ribosome biogenesis. There isn\u2019t a single specific function tying all proteins together, but the cluster centers on growth-related signaling and developmental regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000601","count":6},{"id":"GO:0050731","count":6},{"id":"GO:0000463","count":5},{"id":"GO:1904668","count":5},{"id":"GO:0072432","count":5}]},{"hash":"1039283005844828778","title":"Embryo implantation and placental vascular development","description":"The top GO terms point to reproductive-vascular processes such as embryo implantation, blood coagulation, and blood vessel maturation, with a hypoxia response tie-in, suggesting a placental/vascular development theme. Additional stress-response terms (ER stress, oxidative stress) may accompany placental remodeling. Although there are no observed edges, the recurring functional signals cluster around placental vascular development and adaptation to cellular stress.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007566","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0001955","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0071494","count":1}]},{"hash":"2051149420990236369","title":"Mitotic Cytoskeleton and Cell Division","description":"The cluster\u2019s GO terms point to mitosis and cell division (mitotic cell cycle, cell division) and concurrent cytoskeletal remodeling (microtubule severing, barbed-end actin filament capping), with regulatory processes such as GTPase activity and ubiquitination that coordinate spindle dynamics. While a few terms touch broader signaling or chromatin modification, the strongest signals define a theme of mitotic progression and cytoskeletal regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051013","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1105763522715961492","title":"PNS Myelination and Neural Signaling","description":"The top GO terms cluster around peripheral nervous system development and myelination (Schwann cell development; myelination in PNS) and neural signaling processes (synaptic vesicle exocytosis regulation, opsin signaling, calcium detection, calcineurin-NFAT signaling). While there are a few broader signaling terms (GTPase activity, adenylate cyclase) and a couple unrelated pathways (VEGF signaling, cardiac hypertrophy), the dominant theme is Schwann cell\u2013driven PNS myelination and interconnected neural signaling activities, suggesting proteins that coordinate PNS development and neuronal communication.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0022011","count":1},{"id":"GO:0007190","count":1},{"id":"GO:0014898","count":1},{"id":"GO:2000300","count":1}]},{"hash":"755011332148035139","title":"Embryonic development and skeletogenesis","description":"GO terms cluster around embryonic growth and differentiation, notably limb morphogenesis, chondroblast/osteoblast differentiation, BMP signaling regulation, and placental development (chorio-allantoic fusion), with related neural and mechanotransduction responses such as myelination, dexamethasone stimulus, and cellular response to mechanical stimulus. This suggests a cohesive module of embryonic development centered on skeletal formation, with supporting signaling and developmental processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030326","count":3},{"id":"GO:0060710","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0045669","count":3}]},{"hash":"407328767715810686","title":"Virus entry and genome replication","description":"The terms point to viral infection: entry into host cells and nucleus, establishment of proviral latency, and host\u2013virus interactions, complemented by DNA replication and recombination-related processes. These together suggest a cohesive theme of virus\u2013host entry and genome maintenance, despite some distant or obsolete GO terms that appear as noise.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0075732","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0046718","count":1}]},{"hash":"134836524269661019","title":"Unknown","description":"GO terms are highly diverse and scattered: thiamine and thyroid hormone metabolism, phosphorylation and redox-related biosynthesis, a specific lysine trimethylation, a developmental term (otolith development), and a response to cAMP. With no edges and little overlap among functions, there is no clear unifying function for this protein set.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018023","count":2},{"id":"GO:0006772","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009229","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1845501029192408487","title":"Unknown","description":"The GO terms are highly diverse (pigmentation, methylotrophic metabolism, membrane protein localization, cardiac action potential regulation, ER protein exit, phosphorylation), with no clear common function or pathway, and there are no edges connecting the proteins, so a cohesive label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":1},{"id":"GO:0019647","count":1},{"id":"GO:2000649","count":1},{"id":"GO:1900825","count":1},{"id":"GO:2000010","count":1}]},{"hash":"457038890936504148","title":"Hair Keratinization and RNA Splicing","description":"The GO terms strongly emphasize keratinization and hair cycle, pointing to skin/hair biology. The concurrent RNA processing and spliceosome-related terms suggest involvement in RNA splicing mechanisms. Some terms also touch on nervous system development and sensory perception of sound, which can relate to inner-ear hair cells that share keratinized features. Together, the cluster centers on hair/skin keratinization with RNA splicing processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0042633","count":2},{"id":"GO:0006396","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1533238720389101262","title":"Embryonic and Organ Morphogenesis","description":"The GO terms point to development and morphogenesis across many tissues\u2014heart, visual system, reproductive tract, inner ear, limb, and palate\u2014along with neural development terms like retinal axon guidance and myelination. This scattered but coherent set indicates a cluster of proteins involved in broad embryonic development rather than a single pathway.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0003148","count":4},{"id":"GO:0022011","count":3},{"id":"GO:0031290","count":3}]},{"hash":"914595435568969107","title":"Developmental gene regulation and tissue differentiation","description":"The cluster shows enrichment for development-related processes (ring gland and salivary gland development, segment identity specification) alongside differentiation (fat cell and osteoblast differentiation) and core transcription (RNA polymerase II). It also includes signaling and stress-response terms (interferon production, nitrosative stress\u2013induced apoptosis) and metabolic regulation (triglyceride homeostasis), suggesting a module of regulatory factors influencing tissue development and differentiation across contexts. This common theme centers on gene regulation governing cell fate and tissue maturation.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0045600","count":5},{"id":"GO:1990442","count":5},{"id":"GO:0035271","count":5},{"id":"GO:0060691","count":5}]},{"hash":"617198860905153491","title":"Calcium signaling and ion-channel regulation","description":"These proteins appear linked by GO terms that repeatedly describe negative regulation of ion channels and calcium signaling (store-operated calcium channel activity, delayed rectifier potassium channel activity) as well as regulation of excitability-related processes like cardiac muscle contraction and neurotransmitter secretion. While some terms touch on development or stress responses, the strongest and most recurrent theme centers on modulation of calcium signaling and ion-channel\u2013dependent excitability. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1904378","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0021888","count":8},{"id":"GO:0086004","count":8},{"id":"GO:0034140","count":8}]},{"hash":"980001839871620112","title":"Embryonic tissue and organ development","description":"These proteins are collectively enriched for developmental processes across multiple tissues (brain development, skeletal muscle and cartilage formation, endocrine pancreas development, placenta-related differentiation, heart cushion EMT, left-right patterning, inner ear development). The common theme is embryonic development and organogenesis across tissues, so this label captures the cluster's overarching function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0060972","count":2}]},{"hash":"1944902220454985973","title":"Embryonic organ morphogenesis","description":"The GO terms cluster around embryonic development and morphogenesis of multiple organs (heart, pituitary, placenta, eye, hindlimb, habenula, and more), indicating a shared theme of embryonic organ formation rather than a single pathway.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":4},{"id":"GO:0035116","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001890","count":3}]},{"hash":"1940646244764057845","title":"Ubiquitin-Mediated Cell Cycle and Immune Signaling","description":"Top terms cluster around ubiquitin-related processes (K11-linked ubiquitination, proteasome quality control), mitosis exit and spindle checkpoint regulation, ISG15 conjugation, and immune signaling pathways (TRIF-dependent TLR signaling and T cell receptor signaling). This suggests a module where ubiquitin-proteasome activity links cell cycle control with immune signaling, supporting a label of ubiquitin-mediated cell cycle and immune signaling.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":8},{"id":"GO:0030466","count":8},{"id":"GO:0071629","count":8},{"id":"GO:0010458","count":8},{"id":"GO:1902426","count":8}]},{"hash":"1024629740978382685","title":"RNA methylation and transcription regulation","description":"The cluster shows strong enrichment for RNA and protein methylation events (tRNA methylation, wobble uridine modification, mRNA capping, histone and protein methylation) alongside transcription regulation (negative regulation of RNA Pol II). While a couple terms like nodulation and cobalamin biosynthesis are less directly connected, the dominant theme is methylation-based control of transcription and RNA processing.","confidence":"High","size":8,"edges":16,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0006479","count":4},{"id":"GO:0030488","count":4},{"id":"GO:0016049","count":4}]},{"hash":"1411432209853197342","title":"Developmental Signaling and Cell Migration","description":"This cluster mixes signaling pathways (T cell receptor signaling, innate immune response) with cytoskeletal remodeling and movement processes (lamellipodium assembly, cell migration, axon guidance) and developmental themes (heart development, caveolin-mediated endocytosis). While a few terms relate to DNA repair, the predominant pattern points to signal transduction coupled with cytoskeletal dynamics in development and immunity, making this a coherent developmental/migration-focused group.","confidence":"Medium","size":8,"edges":16,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0051973","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0072584","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2298744272468970130","title":"Chromatin remodeling and transcriptional repression via methylation","description":"This cluster is dominated by GO terms related to chromatin state and transcriptional control (negative regulation of RNA Pol II transcription, rDNA heterochromatin formation, and chromatin remodeling) and several methylation activities (protein and rRNA methylation, and methylation of amino acids). The common thread appears to be methylation-driven regulation of chromatin and gene expression, with additional but supportive signals from protein/rRNA modification processes. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0000183","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0070475","count":2},{"id":"GO:0007098","count":2}]},{"hash":"1234281532529070839","title":"Developmental transcription regulation in neural and sensory tissues","description":"The cluster is enriched for neural and brain development terms (brain development, ventral spinal cord interneuron specification, neural crest cell migration, inner ear development) alongside transcriptional regulation (negative regulation of transcription by RNA polymerase II, transcription by RNA polymerase II). While it also includes endocrine development terms (pituitary gland, male gonad development) and fertilization, the cohesive theme appears to be developmental programs controlled at the transcriptional level in neural and sensory contexts.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0021983","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0007338","count":4}]},{"hash":"1613291300656007518","title":"Mitotic Exit and Ubiquitin-Proteasome Regulation","description":"The cluster is dominated by GO terms tying mitotic control (exit from mitosis, G2/M transition, chromosome segregation, spindle assembly checkpoint deactivation) to ubiquitin-proteasome\u2013mediated proteolysis (SCF-dependent and K11-linked ubiquitination, cytoplasmic quality control). This suggests a cohesive theme around cell-cycle regulation via targeted protein degradation, with some additional chromatin/DNA repair associations reflecting broader coordination during mitosis.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":8},{"id":"GO:0031146","count":8},{"id":"GO:0016032","count":8},{"id":"GO:0007059","count":8},{"id":"GO:0000086","count":8}]},{"hash":"1215664765778666482","title":"Multi-tissue Development and Patterning","description":"The top GO terms cluster around developmental processes across multiple tissues: retina development and retinal ganglion cell axon guidance (eye), rhombomere development (neural patterning), Purkinje and AV node cell development (heart), and uterus development, with transcription-related terms reflecting gene regulation during development. This points to a unifying theme of embryonic/organ development and tissue patterning rather than a single pathway, hence a multi-tissue development label.","confidence":"High","size":8,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0055114","count":3}]},{"hash":"746511686713662582","title":"ER proteostasis and protein folding quality control","description":"GO terms emphasize unfolded protein response, chaperone-assisted refolding, and ER-associated maturation/degradation, indicating a proteostasis/quality-control module in the endoplasmic reticulum. Some terms (like mesoderm formation) may be noise, but the dominant signals point to folding, quality control, and trafficking processes.","confidence":"Medium","size":8,"edges":12,"triangles":5,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0001707","count":5},{"id":"GO:0051259","count":4},{"id":"GO:0031204","count":4},{"id":"GO:0090084","count":4}]},{"hash":"2226105385281358776","title":"Rac-driven dendritic spine morphogenesis","description":"The most frequent terms center on Rac protein signal transduction and actin remodeling processes (ruffle and lamellipodium assembly) and dendritic spine morphogenesis/development, with hippocampus development pointing to neuronal specialization. Together, these suggest a cluster of proteins coordinating Rac-mediated cytoskeletal remodeling to promote dendritic spine growth in neurons. A couple of peripheral terms (Golgi transport and T cell costimulation) are less central to the main neuronal spine theme. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":3},{"id":"GO:0045792","count":3},{"id":"GO:0097178","count":3},{"id":"GO:0061001","count":3},{"id":"GO:0043001","count":3}]},{"hash":"1430086010996062658","title":"TGF-\u03b2/BMP signaling regulators","description":"This cluster is dominated by GO terms related to transforming growth factor beta (TGF-\u03b2) and BMP signaling, including cellular response to TGF-\u03b2, negative regulation of TGF-\u03b2 receptor signaling, BMP signaling regulation, and SMAD complex assembly. These collectively point to proteins that modulate TGF-\u03b2/BMP pathways. A couple of terms on meristem identity or photosystem stoichiometry appear peripheral, likely reflecting broader or multi-functional annotations, but the core theme is signaling pathway regulation.","confidence":"Medium","size":8,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0046827","count":3},{"id":"GO:0080005","count":3},{"id":"GO:0010074","count":3},{"id":"GO:0030514","count":3}]},{"hash":"1671929017025365318","title":"Growth-Regulating Developmental Signaling","description":"The top GO terms cluster around developmental processes and growth regulation (negative regulation of organ growth, gland morphogenesis, lens fiber differentiation) and signaling pathways (TGF-beta response, Rac signaling), suggesting a theme of growth control via developmental signaling. Some terms are more peripheral (phagolysosome assembly, membrane depolarization), but the core pattern points to growth-modulating developmental signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0046621","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0001845","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0030433","count":3}]},{"hash":"1475871556691338422","title":"Neuronal synapse development and plasticity","description":"The cluster centers on dendritic spine morphogenesis, synapse structure modulation, excitatory postsynaptic potentials, and synaptic vesicle transport, all core to synapse formation and plasticity. Additional terms like axon guidance and behaviors such as vocalization and social interaction point to neural circuitry functions, reinforcing a cohesive theme of neuronal development and synaptic regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0051835","count":4},{"id":"GO:2000463","count":4}]},{"hash":"2198399846789740620","title":"Germline DNA Repair and Meiosis","description":"The cluster centers on homologous recombination and various DNA repair pathways (DSB repair, interstrand cross-link repair, telomere maintenance via recombination) and includes meiotic processes (male meiosis I, oocyte fate determination). This suggests a coordinated germline DNA repair and recombination program, with some proteins also involved in homooligomerization. ","confidence":"High","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0036297","count":6},{"id":"GO:0007141","count":6},{"id":"GO:0071140","count":6}]},{"hash":"1218715895981357985","title":"Innate Immune Signaling and IL-6 Regulation","description":"The top GO terms point to innate immune response and inflammatory processes, including positive and negative regulation of IL-6 production, regulation of dendritic cell cytokine production, and NOD2 signaling. While there is also a mention of dopamine receptor signaling and CAMKK-AMPK pathways, the strongest common theme across terms is innate immune activation and cytokine (IL-6) regulation, suggesting a cohesive cluster of innate immune signaling functions.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032755","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060161","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0070431","count":3}]},{"hash":"263923601358000911","title":"Unknown","description":"The GO terms connected to these 8 proteins are highly disparate (mRNA processing and stability, plant immune response, translation initiation, oocyte differentiation, learning and exploration behaviors) and even include obsolete entries, with no clear shared function or pathway linking the proteins. This suggests there is no coherent, single biological theme for the cluster, so an Unknown label with no confidence is most appropriate.","confidence":"","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":2},{"id":"GO:0043488","count":1},{"id":"GO:0044829","count":1},{"id":"GO:0034052","count":1},{"id":"GO:1903679","count":1}]},{"hash":"1073585773891185780","title":"DNA damage\u2013linked transcriptional regulation and chromatin remodeling","description":"The enriched GO terms center on transcriptional control and chromatin dynamics, including negative regulation of RNA Pol II transcription, nucleosome disassembly and chromatin remodeling, ubiquitination, and components of the p53 DNA damage response. This suggests a functional module where transcription regulation and chromatin state are coordinated in response to DNA damage and during cell-cycle regulation, with some peripheral terms that may reflect broader stress responses.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0071157","count":4},{"id":"GO:0043066","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0071494","count":3}]},{"hash":"991060459933282361","title":"Spliceosome-Mediated RNA Processing and Export","description":"The top GO terms cluster around spliceosome-driven mRNA processing (splice site recognition and regulation of alternative splicing) and mRNA export from the nucleus, with additional signals of stress-related mRNA stability and broader RNA regulation (miRNA silencing; viral translation terms) that complement post-transcriptional control. This suggests a cohesive role in pre-mRNA splicing decisions and transport of transcripts out of the nucleus, hence a label focused on spliceosome-mediated RNA processing and export.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0000381","count":5},{"id":"GO:0010610","count":5},{"id":"GO:0035278","count":5}]},{"hash":"1486158854411202976","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0042274","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0001824","count":1},{"id":"GO:0017126","count":1}]},{"hash":"477864558979021882","title":"mRNA processing and translation regulation","description":"GO terms center on mRNA splicing regulation via the spliceosome, mRNA export from the nucleus, and regulation of translation and stability (including IRES-dependent initiation and miRNA-mediated silencing). This suggests the cluster is involved in controlling the mRNA lifecycle from processing to translation, particularly under stress. Some obsolete terms are present but do not alter the core theme.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":3},{"id":"GO:0006376","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0010610","count":2},{"id":"GO:0035278","count":2}]},{"hash":"992249543616113098","title":"Differentiation and signaling across tissues","description":"This cluster centers on differentiation of multiple cell types (keratinocytes, Bergmann glia, cerebellar cortex formation) and includes several signaling pathways (T cell receptor, insulin receptor signaling), plus regulation of cell proliferation, suggesting a broad cross-tissue differentiation and signaling theme rather than a single specific function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097350","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0030216","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0050852","count":3}]},{"hash":"978927736687182965","title":"Nuclear transport and pore assembly","description":"The top GO terms are dominated by nuclear processes: nuclear pore complex assembly, import of proteins into the nucleus (including NLS-bearing proteins and ribosomal proteins), and related nucleocytoplasmic transport activities. There is also a cohesion term tied to centromeric chromatin, and a ciliary transport term, but the strongest theme is nucleocytoplasmic transport and pore assembly, suggesting the cluster centers on nuclear import/transport machinery. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0051754","count":6},{"id":"GO:0051292","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0035735","count":4}]},{"hash":"738566367873361223","title":"Innate Immune Regulation and Cell Adhesion","description":"The top GO terms cluster around innate immune processes (innate immune response, negative regulation of macrophage activation, positive regulation of dendritic cell differentiation) and cell\u2013cell adhesion (heterophilic cell-cell adhesion), suggesting a theme of immune regulation and signaling in host defense. A few terms such as symbiont entry into host cell and cuticle pattern formation appear as outliers or species-specific annotations, which can occur in mixed datasets but do not dominate the cluster.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043031","count":7},{"id":"GO:0071639","count":7},{"id":"GO:2001200","count":7},{"id":"GO:0051963","count":7},{"id":"GO:1904604","count":7}]},{"hash":"1406606431386976776","title":"Mitotic cell cycle regulation","description":"The cluster is centered on mitotic cell cycle control, with multiple GO terms pointing to G1/S and G2/M transitions, chromosome condensation (histone H3-S10 phosphorylation), and mitotic spindle dynamics. While there are some developmental terms, the dominant signal is regulation of cell cycle progression during mitosis.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0046626","count":4},{"id":"GO:0033598","count":4},{"id":"GO:0000082","count":4}]},{"hash":"893757677194270534","title":"Growth-factor-driven cell migration and actin remodeling","description":"This cluster centers on chemotaxis/migration in response to growth factor signals (PDGF, TGF-beta, retinoic acid) and on actin filament polymerization, seen in dendritic/immune cells and in morphogenesis contexts.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002408","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0014911","count":2}]},{"hash":"1417058754606911320","title":"DNA Repair and Neural Development","description":"Based on the top GO terms, the cluster is strongly linked to DNA damage response and repair (cellular response to ionizing radiation; DNA repair), suggesting a core function in genome maintenance. The presence of neural-development terms (CNS neuron development, cerebellum development, lens development) indicates the proteins may be active in neural or eye tissues, implying a neural-development context. Additional terms related to caveolin-mediated endocytosis and cell migration point to membrane trafficking and movement in developing neural tissue. Taken together, the cluster seems to center on DNA repair with neural development associations rather than a single isolated process.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071479","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0072584","count":2},{"id":"GO:0002088","count":2},{"id":"GO:0021954","count":2}]},{"hash":"944653658442221088","title":"Mitochondrial DNA Repair and Innate Immunity","description":"These proteins feature mitochondrial double-strand break repair via homologous recombination and DNA-templated transcription, with immune-related terms such as innate immune response, inflammatory response, IL-6 and type II interferon production, and NOD2 signaling, suggesting a shared role in mitochondrial genome maintenance linked to innate immune signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097552","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0032755","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0070100","count":1}]},{"hash":"1712315219942510069","title":"Zinc Ion Import and Homeostasis","description":"The top GO terms are dominated by zinc-related processes: zinc ion import across the plasma membrane (two terms), intracellular zinc ion homeostasis, zinc ion detoxification, and cellular response to zinc ion starvation, indicating a cohesive theme of zinc uptake and regulation. The presence of a zinc/cadmium transport term supports a metal ion transport function. A few non-zinc terms appear as incidental annotations. Overall, the cluster appears to consist of proteins involved in maintaining cellular zinc levels through import and homeostasis, so \"Zinc Ion Import and Homeostasis\" is a representative label.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034224","count":2},{"id":"GO:0006831","count":2},{"id":"GO:0006882","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0044749","count":2}]},{"hash":"376539559574297196","title":"GPCR Signaling Regulation and Ubiquitination","description":"This cluster centers on regulation of G protein-coupled receptor signaling, plus a notable emphasis on protein ubiquitination (K11-linked) and protein\u2013protein interactions (trimerization/heterooligomerization). The combination suggests a module where GPCR pathways are modulated through ubiquitin-mediated regulation and assembly of multi-subunit complexes, with some immune-associated signals observed. While a few terms are obsolete, the core themes point to GPCR regulation intertwined with ubiquitination and complex formation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008277","count":2},{"id":"GO:0070979","count":1},{"id":"GO:0070206","count":1},{"id":"GO:0051348","count":1},{"id":"GO:0051291","count":1}]},{"hash":"1802340426238643208","title":"Lipid-derived signaling and xenobiotic detox","description":"The top GO terms cluster around prostaglandin and oxylipin biosynthesis, fatty acid omega-oxidation, and xenobiotic/coumarin/isoquinoline alkaloid catabolic processes, with additional hormone biosynthesis terms (aldosterone, calcitriol, brassinosteroid) and a uterus development term. The common thread appears to be lipid-derived signaling molecule production and related metabolism, along with detoxification of xenobiotics. This suggests enzymes involved in lipid-derived signaling and xenotic processing as the core function of the cluster, hence the name.","confidence":"Medium","size":8,"edges":15,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":6},{"id":"GO:0036378","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0032342","count":3},{"id":"GO:0031408","count":3}]},{"hash":"1919488282165156312","title":"Steroid and Lipid Metabolism","description":"This cluster is dominated by GO terms related to steroid biosynthesis and lipid processing, including calcitriol and aldosterone biosynthesis, brassinosteroid homeostasis, omega-oxidation, and lipid hydroxylation, alongside xenobiotic and secondary metabolite catabolism. Together, these suggest a cohesive theme of lipid/steroid metabolism and detoxification, despite some unrelated annotations that may reflect broad or cross-domain annotations. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036378","count":8},{"id":"GO:0060065","count":8},{"id":"GO:0032342","count":8},{"id":"GO:0031408","count":8},{"id":"GO:0033076","count":8}]},{"hash":"1163890300867120961","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0019835","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0033320","count":2}]},{"hash":"1215033668896415506","title":"Methionine cycle and one-carbon metabolism","description":"The set is rich in terms tied to methionine metabolism and one-carbon chemistry: SAM biosynthesis, the L-methionine cycle, and L-methionine catabolic process, along with a general one-carbon metabolic process, suggesting a core emphasis on methyl group transfer and methionine-related metabolism. Other terms like L-kynurenine catabolism, lipid A/LPS biosynthesis, antibiotic response, and Notch signaling seem peripheral by comparison but do not outweigh the methionine-centric theme.","confidence":"High","size":8,"edges":24,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006730","count":3},{"id":"GO:0006556","count":2},{"id":"GO:0009087","count":2},{"id":"GO:0033353","count":2},{"id":"GO:0097053","count":2}]},{"hash":"490400375380770676","title":"Sterol and sphingolipid biosynthesis","description":"The top terms concentrate on lipid metabolism, especially sphingolipid (mannosyl-inositol phosphorylceramide) and sterol biosynthesis (ergosterol, cholesterol, ether lipids, unsaturated fatty acids). These consistent lipid pathways suggest a function centered on lipid biosynthesis and membrane components. Some terms (nitrate assimilation, nitric oxide, mitochondrion inheritance, differentiation) appear less connected and likely reflect broader or incidental annotations, but the lipid-related terms dominate the cluster\u2019s theme.","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006675","count":5},{"id":"GO:0006636","count":5},{"id":"GO:0032443","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0006809","count":5}]},{"hash":"1009099912164732575","title":"Unknown","description":"Top terms indicate a mix of amino acid catabolic processes (L-valine and L-alanine), developmental signaling (Notch pathway, pituitary gland development), neuronal migration, platelet aggregation, and other disparate processes (selenium response, sodium transporter regulation, thiamine biosynthesis). This lack of a cohesive shared function suggests there is no single biological theme uniting the proteins, so a concise, accurate label cannot be assigned.","confidence":"","size":8,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0007219","count":2},{"id":"GO:0097477","count":2}]},{"hash":"1718276304949658948","title":"Embryogenesis and Morphogenesis","description":"The proteins cluster around embryonic development and tissue formation, with GO terms for trophoblast differentiation, placenta development, left-right patterning, cartilage morphogenesis, and endocrine system development. Additional terms for spliceosome activity, mitotic cell cycle, and apoptotic signaling may reflect general cellular processes during development, but the dominant theme is embryonic differentiation and organogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0060972","count":2}]},{"hash":"1654783404321611842","title":"Amino acid and cofactor biosynthesis","description":"Most of the top GO terms point to biosynthetic processes for amino acids (histidine, lysine, phenylalanine, tyrosine, tryptophan derivatives) and biotin, with an additional sphinganine biosynthetic process. Notch signaling and cellular response to insulin stimulus appear but seem secondary to the dominant theme of metabolic biosynthesis, suggesting these proteins predominantly participate in production of amino acids, cofactors, and related metabolites. Confidence in this label is Medium.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000105","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0097053","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0046511","count":3}]},{"hash":"271296328153153294","title":"Membrane Ion Transport and Electrochemical Gradient Maintenance","description":"The terms cluster around transmembrane ion movement and the maintenance of the electrochemical gradient (sodium export, potassium import, copper and cadmium transport, membrane repolarization, and intracellular potassium homeostasis), with related terms supporting ion balance and membrane potential. A couple of terms (serine biosynthesis, testosterone response) are less aligned, but the dominant theme is ion transport and membrane potential regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0097755","count":4},{"id":"GO:0036376","count":4},{"id":"GO:0006564","count":4},{"id":"GO:0010107","count":4},{"id":"GO:0010248","count":4}]},{"hash":"705914580235327362","title":"Multi-tissue signaling and development","description":"The cluster shows enrichment for diverse signaling pathways (B cell receptor signaling, ERK cascade, STAT phosphorylation, erythropoietin signaling) alongside developmental and differentiation processes (nervous system development, orbitofrontal cortex development, melanocyte migration, myeloid progenitor differentiation). This suggests proteins involved in broad signaling cascades that regulate development and tissue differentiation across multiple systems, rather than a single tissue-specific function.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0035607","count":4},{"id":"GO:0002318","count":4},{"id":"GO:0042523","count":4}]},{"hash":"1558791398614692887","title":"T cell activation and cytoskeletal remodeling","description":"These proteins are enriched for immune signaling and cytoskeletal dynamics: T cell activation via TCR-MHC interactions, NK T cell differentiation, and interleukin-7 response indicate adaptive immune signaling; lamellipodium assembly and regulation of Rho/Ras pathways point to actin remodeling and cell migration. Hyaluronan metabolism and IGF receptor signaling may modulate extracellular cues and growth signals that influence immune cell behavior. Taken together, the cluster fits a theme of T cell activation coupled with cytoskeletal remodeling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030212","count":4},{"id":"GO:0010765","count":4},{"id":"GO:0002291","count":4},{"id":"GO:0048009","count":3},{"id":"GO:2001275","count":3}]},{"hash":"1074165805946029795","title":"Insulin Signaling and Growth Regulators","description":"The proteins in this cluster appear biased toward regulation of insulin signaling and glucose uptake, and include multiple terms tied to growth and vascular signaling (angiogenesis, multicellular growth, Ras/Rho and small GTPase pathways) as well as anti-apoptotic control. While some terms touch on immune differentiation or ovarian processes, the overarching theme is signaling modulators that influence cell growth, survival, and angiogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":7},{"id":"GO:0046628","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0001865","count":5}]},{"hash":"1730227700837110199","title":"Innate and Adaptive Response to Gram-negative Bacteria","description":"This cluster is driven by GO terms indicating both innate and adaptive immune activities against Gram-negative bacteria: LPS response, defense against Gram-negative bacteria, antigen processing and MHC class Ib presentation (TAP-dependent), humoral responses, and T cell\u2013mediated activities. The presence of T cell cytokine production and cytotoxicity regulation reinforces a bridge between innate recognition and adaptive effector functions. Some terms like xenobiotic response and iron transport may be ancillary but can reflect inflammatory and microbial interaction contexts, still fitting an overall bacterial immune defense theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0042493","count":7},{"id":"GO:0002726","count":6},{"id":"GO:0033216","count":6},{"id":"GO:0002506","count":6}]},{"hash":"1516478552285714481","title":"Rho GTPase Signaling and Cell Migration","description":"The strongest signals are Rho family GTPase signaling and cell migration, indicating regulation of actin dynamics and motility. Negative regulation of extravasation and vascular remodeling further tie to controlling movement through tissues, while vesicle-related terms suggest broader trafficking roles but do not override the motility theme. Overall, the cluster likely represents Rho GTPase\u2013driven regulation of cell migration.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0002692","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0060313","count":3}]},{"hash":"1533321015035575284","title":"Mitosis and cell cycle regulation","description":"Top terms cluster around G1/S and G2/M transitions, spindle dynamics, and re-entry into mitosis, pointing to a core role in mitotic progression. The inclusion of DNA-templated transcription and certain developmental terms (heart, Schwann cells, mammary gland) suggests these proteins also participate in gene regulation and tissue proliferation during development. Thus, the cluster is best described as mitosis and cell cycle regulation with links to developmental proliferation.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":6},{"id":"GO:0046626","count":5},{"id":"GO:0033598","count":5},{"id":"GO:0000082","count":5},{"id":"GO:2000775","count":5}]},{"hash":"1928883476402079615","title":"Neurodevelopment and Lens Formation","description":"The top GO terms cluster around developmental processes in the nervous system and eye (multicellular organism development, CNS neuron development, cerebellum development, lens development), with related processes like cell migration and endocytosis, suggesting a group of proteins involved in neural and ocular development and associated membrane trafficking. Some terms about xenobiotic response or IL-1 signaling appear peripheral to the main theme but do not outweigh the developmental signal.","confidence":"Medium","size":8,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0072584","count":3},{"id":"GO:0002088","count":3},{"id":"GO:0021954","count":3}]},{"hash":"921844436942082800","title":"Extrinsic apoptosis signaling and execution","description":"The top GO terms are dominated by apoptotic processes, especially extrinsic apoptotic signaling and the execution phase, with neuron, glial, and germ cell apoptosis also represented. A hypoxia response term suggests stress-induced cell death; overall, the cluster centers on programmed cell death pathways triggered by external signals and stress across diverse cell types.","confidence":"High","size":8,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008635","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0097194","count":3}]},{"hash":"602318369093767789","title":"Neuronal signaling and synaptic plasticity","description":"This cluster shows strong enrichment for nervous system development, visual perception, excitatory postsynaptic potential, calcium-dependent exocytosis, and signaling pathways (ERK, Wnt, Rho) that regulate synaptic signaling and cytoskeletal remodeling, pointing to a set of proteins involved in neuronal communication and plasticity. The outlier defense-related term is less central to the core theme. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0090263","count":4}]},{"hash":"2209763285436909188","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"The GO terms show a strong enrichment for actin-based processes (actin filament movement, filopodium and stress fiber assembly) and guidance-related functions (axon guidance), indicating a core theme of cytoskeletal remodeling driving cell movement and neurite guidance. A few terms relate to immune signaling, but the dominant signal is actin dynamics and motility.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042832","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0010801","count":2}]},{"hash":"733098663501636008","title":"Extracellular matrix remodeling and tissue development","description":"The cluster centers on collagen fibril organization and hyaluronan catabolic process, pointing to extracellular matrix (ECM) remodeling. Related terms like establishment of the blood-nerve barrier, lymphangiogenesis, monocyte aggregation, and development of the CNS and skeletal system suggest coordinated ECM-mediated tissue development and vascular-immune interactions.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0030214","count":2},{"id":"GO:0043154","count":2},{"id":"GO:0008065","count":2},{"id":"GO:1901492","count":2}]},{"hash":"58726452767835181","title":"Fatty acid transport and metabolism with antibiotic response","description":"This cluster shows signals for fatty acid-related processes and transport, notably long-chain fatty acid import across the plasma membrane and carnitine-related metabolism, as well as multiple organic acid/ketone metabolism terms such as malonate catabolism. The presence of a response to antibiotic term suggests a stress or defense link, but several GO terms are obsolete, which lowers coherence. Overall, a concise and representative label is \u201cFatty acid transport and metabolism with antibiotic response.\u201d","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009698","count":2},{"id":"GO:0015911","count":2},{"id":"GO:1902987","count":2}]},{"hash":"149286057141336113","title":"Mitochondrial Metabolite Transport","description":"The set is dominated by GO terms for transmembrane transport of mitochondrial metabolites (phosphate, coenzyme A, citrate, thiosulfate, heme) and the malate-aspartate shuttle, plus related metabolic signaling (insulin response, fatty acid response). This points to a cohesive theme of mitochondrial transport and metabolite shuttling, with a historical note from the obsolete genome maintenance term. Overall, the cluster appears to reflect mitochondrial metabolite transport processes.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035435","count":4},{"id":"GO:0035349","count":4},{"id":"GO:0000002","count":4},{"id":"GO:0043490","count":4},{"id":"GO:0060546","count":4}]},{"hash":"1838131319508236487","title":"Mitochondrial Metabolite Transport","description":"Based on the top GO terms, the cluster centers on transport of various metabolites across mitochondrial membranes (phosphate, CoA, citrate, thiosulfate, heme) and the malate-aspartate shuttle, indicating a mitochondria-focused metabolite transport theme. Some terms related to insulin signaling and necroptosis are present but do not diminish the core transport-focused pattern.","confidence":"High","size":8,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":6},{"id":"GO:0035349","count":6},{"id":"GO:0000002","count":6},{"id":"GO:0043490","count":6},{"id":"GO:0060546","count":6}]},{"hash":"1944403738322847418","title":"Growth signaling and cell cycle regulation","description":"The terms cluster around promoting cell growth and signaling (positive regulation of cell proliferation, kinase activity, and mitosis), suggesting a growth/signaling regulation theme. Some terms touch on differentiation and stress responses (muscle development, hypoxia, mRNA transport, myelination), but the dominant pattern is signaling pathways that drive proliferation and cell cycle progression.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0071456","count":3}]},{"hash":"998862394159422408","title":"PI3K-AKT-ERK Stress Signaling","description":"The top GO terms point to core signaling via PI3K/AKT (GO:0043491, GO:0032148) and ERK cascades (GO:0070374), with supporting context in nitric oxide signaling, xenobiotic/cadmium responses, and anti-apoptotic/neuroprotective processes, indicating a cluster of proteins activated in stress and survival signaling. This name captures the central PI3K-AKT-ERK axis and the associated cellular stress responses.","confidence":"High","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0032148","count":3},{"id":"GO:0007263","count":3},{"id":"GO:2000296","count":3}]},{"hash":"563461305065418030","title":"Ubiquitin-Dependent Innate Immune Signaling","description":"The top GO terms cluster around ubiquitin-dependent protein degradation pathways (ubiquitin-dependent catabolic process, ERAD, autoubiquitination) alongside innate immune responses and TNF/NF-\u03baB\u2013related signaling, suggesting a module where ubiquitination controls immune signaling and apoptosis. A couple terms (like synapse assembly) are less central but do not override the dominant theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:1902187","count":4},{"id":"GO:0045087","count":4}]},{"hash":"1741371715445662699","title":"Cell-Cell Recognition and Membrane Fusion","description":"This cluster centers on GO terms related to how cells recognize and adhere to one another, signal across membranes (integrin-mediated signaling), form immunological contacts (immunological synapse), perform heterotypic adhesion, and execute fertilization steps (sperm-egg recognition and fusion). While a couple terms are less obviously aligned (retinoic acid response, vocalization), the dominant theme is cell-cell recognition, adhesion, and fusion processes across different biological contexts.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0071625","count":2}]},{"hash":"1240399054139385049","title":"Neuronal axon guidance and ECM remodeling","description":"The top GO terms center on axon guidance for retinal ganglion and commissural neurons, plus extracellular matrix organization, indicating a cluster involved in neuronal pathfinding and ECM interactions. Additional signals (ERK cascade regulation and proteolytic processing) support signaling and remodeling during development. Overall, the theme is neuronal development with ECM involvement.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0060672","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0031290","count":1},{"id":"GO:0070858","count":1}]},{"hash":"930726064134533290","title":"Endocytic receptor trafficking and integrin signaling","description":"The top GO terms point to receptor internalization and recycling, integrin-mediated signaling, and lysosomal localization, with links to cell motility and vascular signaling (VEGF). This suggests a coherent group of proteins coordinating endocytosis and signaling to control cell movement and receptor fate.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0001921","count":2},{"id":"GO:0071404","count":2},{"id":"GO:1900746","count":2}]},{"hash":"529139300127723076","title":"Neurogenesis with PI3K/AKT and cytokine signaling","description":"The cluster centers on neural development (neurogenesis) and regulation of cell proliferation, with multiple signaling-related terms (PI3K/AKT, STAT phosphorylation) and cytokine production (IL-6, GM-CSF), plus apoptotic pathway involvement. The presence of an unrelated term (vagina development) likely reflects annotation noise, but the dominant theme is neural development coupled to survival and proliferative signaling.","confidence":"Medium","size":7,"edges":16,"triangles":14,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0060068","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0097192","count":4}]},{"hash":"28648996375231914","title":"Unknown","description":"The top GO terms span disparate biology across species (neural differentiation, plant morphogenesis, cardiac differentiation, adhesion/junction organization, actin dynamics, and mRNA localization), with only a few weak interconnections (edges 5, max degree 2, one triangle). There is no clear single function tying these proteins together, so Unknown is the best label.","confidence":"","size":7,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":7},{"id":"GO:0048482","count":7},{"id":"GO:0055011","count":7},{"id":"GO:0007160","count":7},{"id":"GO:0035849","count":7}]},{"hash":"1025790103113182103","title":"Developmental transcriptional regulation and morphogenesis","description":"The GO terms cluster around embryonic development and organ morphogenesis across multiple tissues (neural crest migration, pancreas development, digestive tract morphogenesis, ureteric bud branching, inner ear development, spermatid differentiation). They\u2019re complemented by regulatory processes such as transcriptional repression, chromatin remodeling, and Wnt signaling modulation, pointing to a group of proteins involved in controlling developmental gene expression and morphogenetic events. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0001755","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0048557","count":3},{"id":"GO:0090190","count":3}]},{"hash":"261347307478488048","title":"Embryonic organogenesis","description":"The terms point to broad embryonic development and tissue morphogenesis across diverse organs (retina, hindbrain, somites, heart, inner ear, limb, kidney, uterus). This common thread justifies \"Embryonic organogenesis\" as a label.","confidence":"High","size":7,"edges":9,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":7},{"id":"GO:0021569","count":7},{"id":"GO:0060065","count":7},{"id":"GO:0003168","count":7},{"id":"GO:0060928","count":7}]},{"hash":"1144425467935365424","title":"Multicellular Development Across Tissues","description":"The top GO terms point to broad developmental processes across multiple tissues (retina, brain/forebrain, skeletal muscle, and gonadal development) plus a general multicellular organism development term, with some transcriptional regulation activity. This suggests a cluster focused on developmental regulation across diverse tissues rather than a single specific function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0031290","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0045617","count":4},{"id":"GO:0060041","count":4}]},{"hash":"840535700036071241","title":"Neural Development and Axon Guidance","description":"The cluster is enriched for neural development terms: brain segmentation, rhombomere development, motor neuron and retinal ganglion cell axon guidance, and peripheral myelination, with transcription-related terms (DNA-templated transcription, transcription by RNA polymerase II) suggesting coordinated gene regulation during neural development.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0060195","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0035284","count":3}]},{"hash":"275900156549102153","title":"Craniofacial bone and tooth development","description":"The top GO terms cluster around embryonic cranial skull morphogenesis, osteoblast development and odontogenesis, with supporting roles for FGF receptor signaling in bone formation and hedgehog pathway regulation. While a few terms relate to broader hematopoietic or immune processes, the dominant signal is craniofacial skeletal and tooth formation, suggesting this cluster functions in skull bone and tooth development during embryogenesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":4},{"id":"GO:0040036","count":3},{"id":"GO:0002076","count":3},{"id":"GO:0045669","count":3},{"id":"GO:0045467","count":3}]},{"hash":"752803280584440458","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0001782","count":2},{"id":"GO:0045087","count":2}]},{"hash":"275388831723348176","title":"Unknown","description":"The GO terms across these proteins span multiple unrelated processes (developmental signals like female gonad and retina vasculature development, sensory perception, signaling via ephrin receptors, metabolic pathway activity, and basic cellular processes like DNA replication and apoptosis). There isn\u2019t a single coherent function tying them together, so a concise, representative label cannot be determined.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0045053","count":2}]},{"hash":"1449763719914452101","title":"Embryonic Development and Organogenesis","description":"The top GO terms point to developmental processes across multiple tissues, including left-right patterning, cartilage morphogenesis, pancreatic endocrine development, and endocrine system development, with EMT in heart cushion formation. Although some terms are general cellular processes (splicing, ubiquitin-dependent degradation, ribosomal export), the predominant theme across terms is embryonic development and organ formation, suggesting a module of developmental regulation and morphogenesis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0003198","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1810163185643271384","title":"Blood vessel development and hematopoietic differentiation","description":"The top GO terms cluster around vascular development (blood circulation, blood vessel remodeling, hemangioblast differentiation) and immune/hematopoietic interactions with the vasculature (leukocyte adhesion to endothelium, T cell signaling, NK cell proliferation, regulation of hemocyte differentiation). Although a few terms are tangential, the dominant theme is vessel formation and hematopoietic/immune cell engagement with the vasculature.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008015","count":7},{"id":"GO:2000504","count":7},{"id":"GO:0035157","count":7},{"id":"GO:0007638","count":7},{"id":"GO:0060217","count":7}]},{"hash":"1010721797050282948","title":"Plant Embryogenesis and Chromatin Regulation","description":"GO terms point to early development (in utero embryonic development, cell proliferation, cell differentiation) alongside chromatin and DNA-related processes (nucleosome disassembly, rDNA heterochromatin formation, base-excision repair) and transcription/hormone signaling (snRNA transcription, cytokinin-activated signaling). The recurring theme is regulation of plant development through chromatin remodeling and transcriptional control, with DNA repair as a supporting process.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0009301","count":1},{"id":"GO:1900033","count":1}]},{"hash":"2103700308989818609","title":"Developmental signaling and cell adhesion","description":"The top GO terms point to signaling pathways (PI3K/AKT, BMP) and roles in differentiation, along with kidney, urogenital, forebrain, and retinal development, plus cell\u2013cell adhesion, axon guidance, and synapse organization. This suggests a cluster of proteins coordinating developmental signaling and tissue patterning across multiple organs, with emphasis on cell interactions and neural development.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":4},{"id":"GO:0045663","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0032755","count":3}]},{"hash":"1989243413854974403","title":"Skin-immune signaling and inflammation","description":"This cluster centers on immune-related GO terms: positive regulation of IL-12 production, type II interferon production, and CD8 T cell differentiation, as well as lipopolysaccharide signaling, pointing to innate and adaptive immune activation. The presence of terms tied to skin (skin development, cellular response to mechanical stimulus) suggests these proteins function in skin-associated immune responses or barrier-related signaling. Overall, the pattern supports a theme of immune signaling with skin- and barrier-context, rather than a single metabolic or developmental pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0044130","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0043374","count":3},{"id":"GO:0045084","count":3}]},{"hash":"401569311500401174","title":"Translational Control Under Stress","description":"The cluster shows strong representation of translation-related terms (translational elongation, maintenance of translational fidelity) and a cellular response to ionizing radiation, implying a module focused on preserving or adjusting protein synthesis during stress. Secondary terms (actin regulation, DNA transposition, endothelial proliferation) are less central and may reflect broader multifunctional roles.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006414","count":2},{"id":"GO:0032232","count":2},{"id":"GO:1990145","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0006313","count":1}]},{"hash":"1577930349161522577","title":"Post-transcriptional mRNA processing and regulation","description":"Based on GO terms centered on mRNA processing and regulation, including splice site recognition, alternative splicing regulation, mRNA export, stability under stress, polyadenylation regulation, and translation control by miRNA and IRES mechanisms, this cluster appears to group proteins involved in post-transcriptional control rather than transcriptional activity or DNA processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900363","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0000381","count":2}]},{"hash":"50914764902868610","title":"Spliceosome and RNA processing","description":"The cluster is dominated by GO terms for mRNA processing, RNA splicing, spliceosome assembly, and regulation of splicing, pointing to a core role in spliceosome machinery and RNA maturation. A few terms (developmental morphogenesis, endocytosis) appear as minor outliers. Therefore, this label reflects the dominant function with High confidence.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0048026","count":2}]},{"hash":"2033114213751284633","title":"Auditory hair cell synapse assembly","description":"The proteins are enriched for GO terms related to auditory sensory perception, inner ear hair cell stereocilium organization, postsynaptic membrane assembly, and general synapse formation/transmission, including neuroligin clustering and cell adhesion. This points to a coherent role in establishing and maintaining synapses in auditory hair cells and related neuronal adhesion processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0097118","count":2},{"id":"GO:0060122","count":2},{"id":"GO:0072006","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1004094257530422087","title":"Neural signaling and neuroinflammation","description":"The GO terms cluster around neuronal signaling pathways (adenylate cyclase activation; PLC signaling via serotonin receptors) and vision-related signaling (opsin signaling, visual learning), plus glial/neural interactions (astrocyte chemotaxis) and immune/vascular regulation (TNF, IL-8, blood pressure). This suggests proteins involved in neural signaling with neuroimmune regulation, rather than a single tight metabolic pathway. Confidence in this interpretation is Moderate.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032720","count":6},{"id":"GO:0008542","count":5},{"id":"GO:0035106","count":5},{"id":"GO:0007190","count":5},{"id":"GO:2000484","count":5}]},{"hash":"1180864291320742309","title":"Actin remodeling and caveolin-mediated endocytosis","description":"These proteins are dominated by cytoskeletal remodeling commands (actin filament branching, lamellipodium and ruffle assembly, actin cortical patch assembly) and membrane trafficking via caveolin-mediated endocytosis, all of which relate to cell migration and membrane dynamics. The concurrent appearance of innate immune response and T cell receptor signaling terms suggests these components may also participate in immune signaling where actin remodeling is essential, though the primary signal is cytoskeletal/endocytic. ","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072584","count":4},{"id":"GO:0090135","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0000147","count":4}]},{"hash":"1663959472253485115","title":"RNA processing and neuromuscular development","description":"This cluster is enriched for RNA processing and splicing regulation (GO:0000381, GO:0006397, GO:0006446) and includes several development-related terms tied to neural and muscular tissues (Purkinje cell migration, dendrite morphogenesis, cardiac/skeletal muscle differentiation, neuromuscular balance). The common theme appears to be RNA-level control of gene expression linked to neural and muscular development.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0000723","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0021942","count":1}]},{"hash":"1646461932763201824","title":"Unknown","description":"The GO terms span lipid metabolism, RNA capping, signaling pathways, immune chemotaxis, hormonal response, reproduction, and muscle growth, showing no single cohesive function. With no edges connecting the proteins, there is little evidence of a shared pathway, so this cluster is best labeled Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016126","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0043087","count":1},{"id":"GO:0002233","count":1},{"id":"GO:0071391","count":1}]},{"hash":"1122399496073028285","title":"Ribosome export and mRNA capping/methylation","description":"Most terms center on nuclear ribosomal subunit export (small and large) and RNA processing steps (7-methylguanosine capping and guanine-N7 methylation), pointing to roles in ribosome biogenesis and mRNA maturation. Peripheral transport-related terms appear less characteristic of the core function. Thus, the theme best captured is ribosome export and mRNA processing.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0000770","count":1},{"id":"GO:0030153","count":1}]},{"hash":"1045243017908288884","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001782","count":2},{"id":"GO:0045085","count":2},{"id":"GO:0046782","count":2},{"id":"GO:0097403","count":2},{"id":"GO:2000766","count":2}]},{"hash":"558593402712234055","title":"Nuclear RNA splicing and processing","description":"The cluster is dominated by GO terms tied to spliceosome assembly and RNA processing (spliceosomal complex assembly, tRNA processing, mRNA splicing via spliceosome, snRNP assembly, termination of RNA Pol II transcription, and nuclear import), with an additional note on histone mRNA metabolism. This points to a cohesive theme of nuclear RNA maturation and splicing machinery, despite one ABA response term that may reflect broader plant regulatory connections.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":6},{"id":"GO:0008033","count":6},{"id":"GO:0033962","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0000387","count":6}]},{"hash":"684745722612457073","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0006398","count":4},{"id":"GO:0098789","count":4},{"id":"GO:0006376","count":1},{"id":"GO:0075522","count":1}]},{"hash":"290976934312857208","title":"Innate Immune Activation & Pathogen Recognition","description":"The cluster is dominated by GO terms related to innate immune sensing and downstream effector functions: detection of lipoteichoic acid, innate immune response, Fc-gamma receptor signaling in phagocytosis, T cell costimulation, NK cell regulation, and virion attachment to host cells. These point to a cohesive host-defense module centered on recognizing pathogens and activating immune responses. A few terms about heart rate regulation and fat cell proliferation appear less central to this theme, suggesting they are secondary associations rather than core cluster functions.","confidence":"High","size":7,"edges":18,"triangles":22,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070392","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0070352","count":6},{"id":"GO:0086091","count":6},{"id":"GO:0046814","count":6}]},{"hash":"1825669261430914521","title":"B and T Cell Immune Signaling","description":"The cluster is dominated by GO terms for B cell receptor signaling, humoral immune response, B cell affinity maturation, and regulation of T cell cytokine production/cytotoxicity, plus interferon signaling and defense responses, indicating an adaptive immune signaling module centered on B and T lymphocytes. Some terms like iron ion transport and polysaccharide binding are less specific, but the core theme reflects immune recognition and effector functions.","confidence":"High","size":7,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0060337","count":5},{"id":"GO:0006968","count":5},{"id":"GO:0002344","count":5},{"id":"GO:0002726","count":4}]},{"hash":"2115174156175775152","title":"DNA Damage Repair and Response","description":"This cluster is dominated by GO terms for nucleotide-excision repair, base-excision repair, DNA damage recognition and incision, UV-damage repair, and intrinsic apoptotic signaling in response to DNA damage, pointing to DNA repair and DDR signaling. A few terms about mitochondrial electron transport appear but likely reflect annotation noise or dual localization; overall, the theme is DNA repair and damage response.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042774","count":1},{"id":"GO:0033617","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0033683","count":1},{"id":"GO:0008630","count":1}]},{"hash":"841789347116989662","title":"Developmental morphogenesis across tissues","description":"The Top Terms converge on tissue development and morphogenetic processes across neural, vascular, heart, and epithelial contexts, with cadherin-mediated cell adhesion and organ-specific patterning, suggesting a theme of coordinated morphogenesis and tissue organization rather than a single pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0044331","count":3},{"id":"GO:0001955","count":3},{"id":"GO:0021957","count":2}]},{"hash":"2294342488675399970","title":"Centromere and heterochromatin assembly","description":"This cluster is dominated by chromatin-related terms: CENP-A\u2013containing chromatin assembly, telomere capping, and heterochromatin formation at rDNA and silent mating-type loci, pointing to roles in chromosome structure and genome stability. While there are some development-related terms (spermatogenesis, male gonad development), they likely reflect tissue-specific expression rather than core function. Confidence is high that this label captures the cluster\u2019s primary theme.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006352","count":3},{"id":"GO:0016233","count":3},{"id":"GO:0061641","count":3}]},{"hash":"2111380199232087903","title":"Signaling Pathway Regulation","description":"The terms show regulation of multiple signaling pathways (Notch, VEGF, ERK/MAPK, PI3K/AKT) and related apoptotic signaling, with a minor hint of postsynaptic density assembly. This pattern points to a general role in modulating signaling rather than a single process, so \"Signaling Pathway Regulation\" is the most fitting compact label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097107","count":3},{"id":"GO:0016239","count":2},{"id":"GO:0051229","count":2},{"id":"GO:0035853","count":2},{"id":"GO:1903984","count":2}]},{"hash":"676431770964068368","title":"Cardiac and neural electrical signaling","description":"Several top GO terms cluster around cardiac conduction and action potentials, including regulation of heart rate, atrial depolarization, ventricular repolarization, AV node action potential, and transmission of nerve impulses, pointing to a shared theme of electrical signaling in heart and nervous system; a few immune/development terms appear as noise.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":3},{"id":"GO:0060371","count":3},{"id":"GO:0060307","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0086016","count":3}]},{"hash":"1653430512965561479","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":1},{"id":"GO:0051259","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0032543","count":1}]},{"hash":"1235792089114693672","title":"Antiviral Innate Immune Signaling","description":"The cluster is enriched for innate immune response, defense against virus, and TNF-mediated signaling, indicating a core role in antiviral innate immunity and inflammatory pathways. Secondary terms like regulation of angiogenesis, fibroblast proliferation, and miRNA-mediated gene silencing suggest broader regulatory context and cross-talk with development and post-transcriptional control, but the dominant signal points to innate immune and antiviral signaling. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:2000637","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0033209","count":3}]},{"hash":"2298508535527045367","title":"Neuronal adhesion and dendritic spine maintenance","description":"This cluster is dominated by GO terms related to cell adhesion (substrate adhesion-dependent spreading, heterophilic adhesion) and integrin signaling, along with cytoskeletal remodeling (filopodium assembly) and neuronal-specific processes (dendritic spine maintenance, dendrite regeneration, memory). Together, these imply a theme of adhesion-mediated signaling that supports dendritic spine stability and synaptic remodeling, i.e., neuronal adhesion and synaptic maintenance. Some immune-related terms appear, but the core signal centers on neuronal adhesion and cytoskeletal dynamics.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034446","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0046847","count":3},{"id":"GO:0097062","count":3},{"id":"GO:0050798","count":3}]},{"hash":"1963455226671540780","title":"Carbohydrate Transport and Osmotic Stress Response","description":"The top GO terms show transmembrane transport and cellular responses tied to various carbohydrates (glucose, xylose, fructose, lactose biosynthesis/metabolism) and to osmotic/glucose-starvation stress, indicating a cluster of sugar transporters with broad nutrient-stress responsiveness.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":7},{"id":"GO:0044381","count":7},{"id":"GO:0052106","count":7},{"id":"GO:0005989","count":7},{"id":"GO:0015753","count":7}]},{"hash":"438242347201408101","title":"Osteoclast-mediated bone resorption","description":"This cluster is best described by osteoclast-driven bone remodeling: bone resorption and podosome assembly, with a mechanotransduction signal (cellular response to mechanical stimulus) linking mechanical cues to resorption; while a few developmental terms appear, the dominant theme is osteoclast cytoskeleton dynamics and bone remodeling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0010693","count":2},{"id":"GO:0071260","count":2}]},{"hash":"2282279274833226317","title":"ECM Biosynthesis and Tissue Morphogenesis","description":"The top terms show collagen biosynthesis and collagen fibril organization, pointing to extracellular matrix (ECM) production. Coupled with metanephric tubule and lymph vessel morphogenesis, these terms suggest tissue development and morphogenetic processes. Additional terms for cell adhesion and immune signaling (basophil activation, Fc-gamma receptor signaling) fit into ECM-related tissue remodeling and immune-tascular interactions. Overall, the cluster centers on ECM assembly driving tissue morphogenesis, with ancillary immune-associated signals.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0032964","count":3},{"id":"GO:0072287","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0045575","count":2}]},{"hash":"2230062038303795010","title":"B cell activation signaling and adaptive immunity","description":"The cluster\u2019s top terms include positive regulation of B cell receptor signaling, adaptive immune response, and follicular B cell differentiation, pointing to B cell\u2013driven immune activation. Additional terms such as ERK cascade regulation and Ras/Rho signaling, plus IP3 biosynthesis, suggest related intracellular signaling pathways coordinating B cell responses and phagocytic activity. Overall, the theme centers on B cell\u2013mediated immune signaling and activation.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046580","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0032959","count":6},{"id":"GO:0009395","count":6},{"id":"GO:0038028","count":6}]},{"hash":"67372740089173777","title":"Immune Regulation and Phagocytosis","description":"The top GO terms indicate strong enrichment for immune system processes, including innate immune response, complement activation, phagocytosis and its recognition and engulfment, B cell signaling and activation, and regulation of NK and cytotoxic T cell activity. This points to a cohesive theme of immune system regulation encompassing both innate and adaptive arms and phagocytic functions, with a minor note that one term relates to ion transporter regulation which may be incidental to the core immune-related roles.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0002859","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0043031","count":4}]},{"hash":"2118780116880842238","title":"Heme and Porphyrin Biosynthesis with Stress Response","description":"The cluster combines explicit heme/porphyrin biosynthesis processes (heme biosynthetic and protoporphyrinogen IX biosynthesis) with other biosynthetic pathways (pyruvate and lysine biosynthesis) and multiple stress-related responses (hypoxia, oxidative stress, fatty acid, amino acid, glucocorticoid, and cAMP responses). This pattern suggests proteins involved in core metabolic production that are linked to cellular stress signaling and adaptation. Notably, one term is the obsolete lysine biosynthesis via aminoadipic acid, hinting at lineage- or pathway-specific constraints in this cluster\u2019s members. ","confidence":"Medium","size":7,"edges":15,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":3},{"id":"GO:0070542","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0043200","count":2},{"id":"GO:0051384","count":2}]},{"hash":"217535467381846555","title":"Unknown","description":"The GO terms here are heterogeneous, spanning lipid and energy metabolism (acetyl-CoA, cholesterol, ketone bodies), multiple developmental processes (brain and kidney development), apoptosis regulation, hormone response, sporulation, and protein oligomerization. There isn\u2019t a single cohesive function or pathway tying these together, so a meaningful, specific label isn\u2019t apparent.","confidence":"","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046356","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0072229","count":3},{"id":"GO:0019619","count":3}]},{"hash":"2126201770013600779","title":"Mitotic cell cycle progression and proliferation","description":"The terms center on G1/S and G2/M transitions, mitotic events (spindle separation), DNA-templated transcription, and phosphorylation, all indicative of core cell cycle regulation and proliferation. Insulin signaling regulation and organ regeneration terms complement this by suggesting growth context, but the dominant theme is mitotic control and cell division.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":2},{"id":"GO:0033598","count":2},{"id":"GO:0000082","count":2},{"id":"GO:2000775","count":2},{"id":"GO:0000086","count":2}]},{"hash":"1239691078812293734","title":"Mucosal innate antibacterial defense","description":"The cluster is dominated by GO terms related to innate immune defense against bacteria, especially at mucosal surfaces (defense response to Gram-positive/Gram-negative bacteria, antibacterial humoral response, innate immune response in mucosa). Other terms hint at cytoskeletal dynamics and endocytosis supporting immune cell function. A few neuronal signaling terms appear but are less representative. Thus, the core theme is mucosal antibacterial defense.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0001963","count":2},{"id":"GO:0051666","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0035584","count":2}]},{"hash":"1015757640022305102","title":"Unknown","description":"The top GO terms include neural development (principal sensory nucleus development, neurogenesis, FGFR signaling in brain) and immune signaling (cytokine/chemokine production, NK cell regulation, myeloid differentiation), with other terms related to chemotaxis, STAT signaling, and cardiac depolarization. This diversity suggests no single cohesive function or pathway tying all proteins together, so assigning a concise, biologically consistent label is not possible.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021740","count":2},{"id":"GO:0035607","count":2},{"id":"GO:0050930","count":2},{"id":"GO:0002318","count":2},{"id":"GO:0002859","count":2}]},{"hash":"2166087447438174130","title":"Neural signaling and sensory perception","description":"Most of the top GO terms pertain to nervous system function and sensory processing (visual perception, visual learning, dopaminergic synaptic transmission, sensory perception of pain). ERK cascade regulation supports neuronal signaling. The other terms (heart/muscle development, mRNA splicing) may reflect broader expression patterns rather than a single theme.","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":3},{"id":"GO:0045843","count":3},{"id":"GO:0070374","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0001963","count":2}]},{"hash":"1125467909789274610","title":"Complement Activation and MAC Regulation","description":"The top GO terms are dominated by complement system activity, including classical and alternative pathway activation and positive regulation of membrane attack complex activation, indicating a cohesive theme around innate immune defense. A few other terms appear less related (developmental processes, ossification, etc.), likely reflecting multi-function annotations or non-specific associations, but the strongest signal is complement activation and MAC regulation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0001970","count":6},{"id":"GO:0001701","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0006957","count":6}]},{"hash":"1658373464824624583","title":"Innate Immune Signaling and Inflammation Regulation","description":"The GO terms cluster around innate immune response, inflammatory signaling, dendritic cell cytokine production, and regulation of multiple signaling pathways (JAK-STAT, chemokine signaling, CAMKK-AMPK). The triacyl lipopeptide response supports pathogen sensing. Together they point to innate immune signaling and inflammatory regulation as the cluster's theme.","confidence":"High","size":7,"edges":14,"triangles":13,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0070100","count":7},{"id":"GO:0006469","count":7},{"id":"GO:0045078","count":7},{"id":"GO:0060161","count":7}]},{"hash":"820129198163863170","title":"Blood vessel function and oxygen transport","description":"The cluster is dominated by GO terms tied to blood and vascular biology\u2014blood coagulation, regulation of blood pressure, nitric oxide transport, oxygen transport, and erythrocyte maturation\u2014along with nitrosative stress response, pointing to NO-mediated vascular signaling and oxygen delivery. A couple of terms such as brown fat differentiation and nitrogen fixation seem less connected and may reflect noise. Overall, the shared theme is vascular/blood function with NO-oxygen signaling.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0008217","count":1},{"id":"GO:2000490","count":1},{"id":"GO:0051409","count":1}]},{"hash":"981804762567276427","title":"Dopaminergic neural signaling and drug response","description":"This cluster centers on neural signaling and reward-related pathways: dopaminergic synaptic transmission, visual perception/learning, and cocaine-related behavioral responses, with ERK cascade and protein phosphorylation indicating active signal transduction. While heart development and macrophage chemotaxis terms appear, the dominant theme is neural signaling and drug-response functions, suggesting these proteins participate in dopaminergic/sensory processing and related behavioral modulation.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006468","count":3}]},{"hash":"1167932386252154948","title":"Plant cell wall biosynthesis and glycosylation","description":"The cluster is dominated by plant-specific cell wall biosynthesis terms, including homogalacturonan and glucuronoxylan biosynthesis, and plant-type secondary cell wall biogenesis, plus mucilage biosynthesis and glycosylation-related processes. While there are some unrelated terms (glycogen, DNA repair, muscle regeneration) these appear to be noise relative to the strong plant cell wall signal. This makes a cohesive theme of plant cell wall polysaccharide assembly and glycosylation a suitable label.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0006303","count":2},{"id":"GO:0016266","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0010289","count":2}]},{"hash":"1847941631727022299","title":"Zinc transport and homeostasis","description":"The top GO terms are dominated by zinc-related processes: zinc ion import across plasma membrane, intracellular zinc ion homeostasis, detoxification of zinc ion, and zinc ion starvation response, indicating a cohesive function in zinc handling and transport. A couple of outliers (limb development, antibacterial humoral response) likely reflect broader or incidental annotations rather than a core cluster theme. ","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034224","count":1},{"id":"GO:0006831","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0044749","count":1}]},{"hash":"1849744843950543680","title":"DNA repair and genome stability","description":"The cluster shows enrichment for base-excision repair, depyrimidination, and regulation of double-strand break repair via SSA, plus telomere maintenance, pointing to a core role in genome maintenance. The presence of various stress-response terms ( xenobiotic, cadmium, ethanol, light) suggests broader cellular damage signaling linked to DNA repair.","confidence":"High","size":7,"edges":12,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0045008","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1153824255702389277","title":"TORC1-driven growth signaling and cell proliferation","description":"This cluster centers on TORC1 pathway signaling, kinase activity regulation, and promotion of cell cycle progression, with GO terms like TORC1 signaling, positive regulation of protein serine/threonine kinase activity, and mitotic cell cycle. Peripheral terms such as mRNA transport and hypoxia response may reflect broader regulatory processes, but the core pattern points to growth control and proliferation. ","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051028","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0071902","count":3}]},{"hash":"2229272077380534817","title":"Embryonic development and patterning","description":"Many top GO terms cluster around embryonic development processes: left-right pattern formation, endocardial cushion formation, cartilage morphogenesis, placenta and pancreatic endocrine development, and transcriptional regulation during development. This suggests the proteins are involved in embryogenesis and tissue patterning, with shared roles in developmental gene expression.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3}]},{"hash":"1656008731129786174","title":"Pseudouridine Synthesis (tRNA/rRNA)","description":"The top GO terms are strongly biased toward RNA modification, especially tRNA pseudouridine synthesis and enzyme-directed rRNA pseudouridine synthesis, pointing to a core function in pseudouridylation of RNA that can influence translation. Other terms like translation and various biosynthetic processes appear less central, and the absence of edges suggests these proteins may share annotation signals rather than form a tightly interacting complex. Overall, the cluster is best described by RNA modification via pseudouridine synthesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031119","count":2},{"id":"GO:0000455","count":2},{"id":"GO:0006750","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0051516","count":1}]},{"hash":"860880953230662747","title":"Hair Follicle Keratinization","description":"Top GO terms strongly point to keratinization and the hair cycle, indicating the cluster centers on hair follicle biology and structural keratinization processes; the proteins are likely involved in forming the keratinized hair shaft and regulating the hair growth cycle.","confidence":"High","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":7},{"id":"GO:0042633","count":7}]},{"hash":"734186291849033167","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms cluster around neural development and synaptic function: cerebellar granule cell differentiation, calcium ion transport, regulation of synaptic vesicle fusion, and positive regulation of long-term potentiation, with visual learning and intracellular signaling reinforcing a nervous-system theme. A couple of outliers (e.g., cell wall catabolic processes, ectoine transport) appear sparse, but the dominant signal points to neuronal signaling and synaptic plasticity.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0051470","count":1}]},{"hash":"191023045067995344","title":"Developmental morphogenesis and organogenesis","description":"The top GO terms point to broad embryonic development and organ formation processes (kidney development, roof of mouth development, hair follicle morphogenesis, left/right pattern formation, placenta-related regulation), indicating the proteins are linked to developmental morphogenesis rather than a single specific pathway. This justifies a concise label like \"Developmental morphogenesis and organogenesis\" to capture the shared theme across multiple organ and patterning processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0010729","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060021","count":2}]},{"hash":"1896241130646245228","title":"Neuropeptide and Serotonin Neuronal Signaling","description":"The cluster is dominated by GO terms for neuropeptide signaling and serotonin receptor\u2013related pathways, with additional hints of learning and cognitive processes (visual learning, operant conditioning) and GPCR\u2013PLC signaling, suggesting a neuronal signaling focus. Immune-related terms appear but are ancillary, not defining the primary pattern. Overall, it reflects neuronal signaling networks centered on neuropeptides and serotonin.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":4},{"id":"GO:0032720","count":3},{"id":"GO:0008542","count":2},{"id":"GO:0035106","count":2},{"id":"GO:0007190","count":2}]},{"hash":"316819848921604247","title":"Intracellular signaling and vesicle trafficking","description":"This cluster centers on signaling pathways (cAMP response and regulation of EGFR signaling) and vesicle trafficking/protein turnover (endosome-to-lysosome transport, ubiquitin-dependent degradation via MVBs, and regulation of exosome assembly), with additional metabolic cues (glucose response, glyoxylate cycle, photorespiration) that may modulate these processes. The mix suggests a coordinated network tying signaling to intracellular transport, though some terms are less directly connected.","confidence":"Medium","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0080093","count":3},{"id":"GO:0043065","count":3},{"id":"GO:1903551","count":3},{"id":"GO:0009749","count":3}]},{"hash":"638178843881872716","title":"ER Protein Folding & Quality Control","description":"The cluster is enriched for endoplasmic reticulum\u2013associated folding and stress response terms: protein folding in the ER, response to unfolded protein, and protein quality control. Additional terms for membrane targeting and complex oligomerization align with chaperone-assisted folding and assembly in the secretory pathway. Some older/obsolete annotations (ERAD, iron-sulfur maturation) exist but do not derail the core ER folding/quality-control theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051259","count":6},{"id":"GO:0031204","count":6},{"id":"GO:0090084","count":6},{"id":"GO:0070389","count":6},{"id":"GO:0006469","count":6}]},{"hash":"1781401187018780100","title":"Embryonic organ morphogenesis regulators","description":"The GO terms cluster around embryonic development and organ morphogenesis (eye, lung, pancreas, digestive tract, cranial skeleton, neural crest) with transcriptional regulation (RNA Pol II). This suggests the proteins act as regulators coordinating transcription during development across multiple tissues, so the label emphasizes both morphogenesis and transcriptional control.","confidence":"Medium","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0060441","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0048048","count":3},{"id":"GO:0043010","count":3}]},{"hash":"1666914471512447880","title":"Neural development and synaptic signaling","description":"The set is enriched for neural development terms: regulation of dendrite development, retinal ganglion cell axon guidance, forebrain cell migration, and synapse organization, along with BMP and PI3K/AKT signaling. This points to proteins functioning together in neurodevelopment and synaptic assembly rather than general metabolism, despite a few broader terms and an obsolete entry. ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0008284","count":5},{"id":"GO:0050773","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043588","count":5}]},{"hash":"1238573545065386649","title":"Pituitary Neuroendocrine Development","description":"The cluster is best described by a neuroendocrine development theme, driven by pituitary gland development and dopamine biosynthesis, with broader signals of embryonic head development and multicellular organism development; xenobiotic response and tRNA modification terms seem ancillary noise rather than core functions.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":5},{"id":"GO:0042493","count":4},{"id":"GO:0045648","count":4},{"id":"GO:0042416","count":4},{"id":"GO:0016575","count":4}]},{"hash":"454925138690092078","title":"UV-induced DNA Repair (NER)","description":"The cluster\u2019s GO terms are dominated by nucleotide-excision repair and UV damage responses, including pyrimidine dimer repair and transcription-coupled NER, indicating a shared role in repairing UV-induced DNA lesions. A few terms about transcription regulation and cell-cycle control likely reflect downstream stress responses, but the core theme is DNA repair after UV exposure.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048597","count":1},{"id":"GO:0006283","count":1},{"id":"GO:0010224","count":1},{"id":"GO:0010225","count":1},{"id":"GO:0045944","count":1}]},{"hash":"168658482752925454","title":"Embryo and reproductive development","description":"The top GO terms cluster around development of embryonic and reproductive tissues (placenta, heart, hindlimb morphogenesis, luteinization) with supporting signals of adipose differentiation and metabolic regulation (leptin response, circadian timing), suggesting a unified theme of developmental processes in reproductive and metabolic tissues.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001893","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0045444","count":4},{"id":"GO:0070858","count":4}]},{"hash":"626887701137933993","title":"Developmental organogenesis and growth","description":"The top GO terms are dominated by developmental processes across multiple organs (midbrain, brain development, pancreas morphogenesis, multicellular organism growth) with an additional note on transcriptional regulation, suggesting involvement in organogenesis and tissue development. Some terms (defense response, plasminogen activation) appear peripheral, but the core signal is developmental growth.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0031639","count":3},{"id":"GO:0035264","count":3}]},{"hash":"1480912183870905356","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0019835","count":2},{"id":"GO:0033320","count":2},{"id":"GO:0019878","count":2}]},{"hash":"1240935480709136874","title":"Neural development and synaptic function","description":"The terms cluster around CNS development and synaptic activity (corticospinal tract morphogenesis; chemical synaptic transmission; regulation of synaptic vesicle clustering; radial glial cell differentiation; neuronal stem cell maintenance), indicating proteins likely participate in neural development and synaptic regulation, with some peripheral developmental terms present but secondary to the neural theme.","confidence":"High","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":4},{"id":"GO:0007268","count":4},{"id":"GO:2000807","count":4},{"id":"GO:0048105","count":4},{"id":"GO:0003273","count":4}]},{"hash":"366249939797859842","title":"Embryonic development and organogenesis","description":"The top terms cluster around embryonic development and organ formation, including left-right patterning, cartilage morphogenesis, endocardial cushion EMT, placental and endocrine system development, and trophoblast differentiation. These coherent themes point to a developmental program driving tissue patterning and organogenesis; ubiquitin-related terms may reflect general protein turnover during development but do not define a non-development function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1277090538016216979","title":"Embryonic Morphogenesis and Differentiation Regulation","description":"This cluster includes GO terms tied to developmental processes across tissues\u2014palate development, hair follicle morphogenesis, and EMT involved in heart development\u2014suggesting a shared role in embryonic morphogenesis. Additional terms on transcriptional regulation and DNA replication initiation imply regulatory control during these developmental events, reinforcing a theme of coordinated gene expression during organ formation.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0032298","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1280663223161013050","title":"Neural development and axon guidance","description":"The top terms are dominated by nervous system development, axon guidance, and Roundabout signaling, pointing to neural development and guidance as the primary theme. There are also immune-related terms and other processes, but they appear secondary to the neural signaling axis. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0035385","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0050852","count":3},{"id":"GO:0007411","count":3}]},{"hash":"893730998215553779","title":"ER stress\u2013related protein folding and translation regulation","description":"The proteins are tied to unfolded protein response and ER quality control, with GO terms for response to unfolded protein, chaperone-cofactor\u2013dependent refolding, and positive regulation of translation initiation under ER stress, plus membrane targeting and regulatory signaling aspects typical of ER-associated protein processing.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0036494","count":2},{"id":"GO:0051259","count":1},{"id":"GO:0031204","count":1}]},{"hash":"400760283588349737","title":"Homologous recombination DNA repair","description":"The top GO terms are dominated by DNA damage repair processes, especially double-strand break repair via homologous recombination, regulation of HR repair, and interstrand cross-link repair, plus a cellular response to ionizing radiation. This points to a core function in DNA damage sensing/repair for the cluster. A few terms about ER-Golgi transport and RNA Pol III transcription appear as minor outliers, but they do not override the HR repair signal.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0010569","count":1}]},{"hash":"29127936469228837","title":"Unknown","description":"The GO terms span cardiac muscle contraction, memory-related processes, mitotic cell cycle, and signaling regulation, with little unifying function across all six proteins. The presence of both cardiac and nervous system terms, plus cell division and signaling modifiers, suggests a heterogeneous cluster rather than a single, defining theme.","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060048","count":5},{"id":"GO:0007616","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0050731","count":3},{"id":"GO:0022011","count":3}]},{"hash":"2215537441977295534","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0046782","count":2}]},{"hash":"50845686993808708","title":"SnoRNP Assembly and RNA Pseudouridylation","description":"This cluster centers on RNA modification and processing: multiple terms point to pseudouridine synthesis (snRNA and snoRNA-guided rRNA), box H/ACA snoRNP assembly, and ribosome biogenesis, alongside telomerase RNA localization, stabilization, and holoenzyme assembly. Together these suggest a cohesive function in snoRNP- and telomerase-associated RNA modification complexes. Some terms like innate immune response, mechanosensory behavior, and spermatogenesis appear as outliers or broader annotations. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031120","count":1},{"id":"GO:1904874","count":1},{"id":"GO:0090669","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0000493","count":1}]},{"hash":"1729709491564556890","title":"Unknown","description":"The GO terms include mitotic sister chromatid separation and cytokinesis (cell division) alongside cell migration and various signaling or regulatory processes, but also outliers like viral process and estrogen receptor signaling. There is no single dominant theme tying all terms together, suggesting the cluster captures a heterogeneous set of functions rather than a coherent biological pathway.","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051306","count":2},{"id":"GO:0016032","count":2},{"id":"GO:2000327","count":1},{"id":"GO:0007548","count":1},{"id":"GO:0033147","count":1}]},{"hash":"1545830784237660948","title":"Cytoskeleton remodeling and cell migration","description":"Based on the GO terms, the cluster is dominated by processes related to cell shape regulation, actin filament bundle assembly, cell polarity, and migration, with a notable emphasis on cytoskeletal dynamics and mechanical signal response. While ubiquitination and some signaling terms appear, the strongest consistent theme is remodeling of the cytoskeleton and cellular motility. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":3},{"id":"GO:0071260","count":3},{"id":"GO:2000301","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1530222001720472547","title":"Neuronal development and synapse regulation","description":"This cluster is dominated by terms related to neurons and synapses (synapse organization; negative regulation of neuron apoptotic process), complemented by ubiquitin-dependent protein turnover via the multivesicular body pathway, suggesting a theme of neuronal maintenance and proteostasis at synapses. While there is a vascular development term, the strongest signals point to neural development and synaptic regulation, with protein degradation playing a key role in managing synaptic components. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":6},{"id":"GO:2000650","count":3},{"id":"GO:2000146","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0080182","count":3}]},{"hash":"1429052835828272311","title":"Ion Transport and Membrane Homeostasis","description":"The cluster is dominated by GO terms about ions moving across membranes and maintaining membrane potential (sodium export, potassium import, intracellular potassium homeostasis, membrane repolarization, cadmium transport) and related membrane processes like phospholipid translocation. A few terms point to metabolic or signaling contexts (L-serine biosynthesis, pheromone and testosterone responses) that are likely peripheral. Overall, the proteins appear linked by a common function in membrane transport and ion homeostasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":3},{"id":"GO:0036376","count":3},{"id":"GO:0000749","count":3},{"id":"GO:0061092","count":3},{"id":"GO:0006564","count":3}]},{"hash":"808741517112671410","title":"Epithelial junctions and polarity regulation","description":"The top GO terms cluster around adherens junction organization, polarized epithelial cell differentiation, and suppression of cell motility, indicating a shared role in cell-cell adhesion and tissue polarity. Additional terms such as synapse organization and ubiquitin-dependent protein turnover via MVB sorting point to linked trafficking and protein turnover processes that support junctional dynamics. While some terms are neuronal/trafficking related, the predominant theme is epithelial junctions and polarity regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000650","count":2},{"id":"GO:1905602","count":2},{"id":"GO:0034332","count":2},{"id":"GO:2000146","count":2},{"id":"GO:0050808","count":2}]},{"hash":"588957307151741539","title":"Neural signaling and synaptic plasticity","description":"This cluster centers on neuronal communication and synaptic function: memory, myelination in the PNS, regulation of synaptic vesicle exocytosis, actin cytoskeleton assembly at synapses, and signaling pathways like epinephrine-activated adenylate cyclase with modulation by protein kinase activity. While there are a few broader \u201cstress signaling\u201d terms (epinephrine response, cardiac hypertrophy, VEGF signaling), the predominant pattern ties to neural signaling, synaptic architecture, and activity-dependent plasticity.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030948","count":6},{"id":"GO:0022011","count":5},{"id":"GO:0007613","count":5},{"id":"GO:0007114","count":5},{"id":"GO:0000147","count":5}]},{"hash":"130187210454752570","title":"Xenobiotic and nutrient transmembrane transporters","description":"The GO terms indicate membrane transport activity for a range of substrates, including vitamins, xenobiotics, ions (potassium, phosphate), and sugars (glucose), which collectively point to a cluster of transporter proteins rather than enzymes. Some terms are tangential (lactose biosynthesis, obsolete quorum sensing), but the dominant pattern supports a transporter-centric group.","confidence":"Medium","size":6,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0042908","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0035435","count":3}]},{"hash":"2063562460649265244","title":"Neural signaling and cardiac stress response","description":"The cluster centers on GPCR/adenylate cyclase\u2013mediated signaling given terms like activation of adenylate cyclase, cellular response to epinephrine, and regulation of protein kinase activity, and also includes nervous system processes (myelination in PNS, memory, regulation of synaptic vesicle exocytosis, opsin signaling) alongside cardiac-related remodeling (cardiac muscle hypertrophy in response to stress, left ventricular morphogenesis). This pattern suggests proteins involved in signaling that operates in neural contexts as well as heart tissue under stress. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0007190","count":2},{"id":"GO:0071872","count":2}]},{"hash":"1287037185512900578","title":"Mitochondrial translation and protein import","description":"The top GO terms center on mitochondria: mitochondrial translation, ribosomal assembly, translation, protein import into mitochondrial matrix, inner membrane insertion, and mitochondrial electron transport. These together indicate a cluster of proteins involved in mitochondrial protein synthesis and import pathways. A chloroplast import term appears but the predominant signal is mitochondrial, so I label accordingly.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0045037","count":1},{"id":"GO:0032094","count":1},{"id":"GO:0045039","count":1}]},{"hash":"2215700618192045861","title":"Chaperone-assisted folding and UPR","description":"Several GO terms point to protein folding and quality control: protein chaperone-dependent refolding, response to unfolded protein, and chaperone-mediated folding regulation. While a few terms (limb morphogenesis, non-motile cilium assembly, cardiac electrical coupling) are more developmental or physiological and not directly tied to folding, the dominant signal is proteostasis via chaperones and the unfolded protein response.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070206","count":2},{"id":"GO:0051348","count":2},{"id":"GO:0035108","count":2},{"id":"GO:1902855","count":2},{"id":"GO:1901846","count":2}]},{"hash":"187106330478872622","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070481","count":3},{"id":"GO:0070478","count":3},{"id":"GO:0070651","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0071042","count":3}]},{"hash":"747363790570434840","title":"Redox Homeostasis and Oxidative Defense","description":"This cluster is dominated by GO terms tied to redox balance and oxidative stress: cell redox homeostasis, cellular oxidant detoxification, and response to hydrogen peroxide, with a defense/respiratory burst angle toward managing reactive oxygen species. A methylamine metabolic term appears incidental; overall, the proteins likely function together in oxidative stress response and detoxification.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0030416","count":2},{"id":"GO:0055114","count":2}]},{"hash":"654249306423321427","title":"Interferon-mediated antiviral defense","description":"This cluster is dominated by GO terms related to antiviral activity and innate immunity, including response to interferon-alpha, innate immune response, and regulation of viral genome transcription/replication. Translation is present but likely reflects general cellular activity or host shutoff during antiviral responses; a few development-related terms appear as outliers and do not define the cluster. Overall, the common theme is innate antiviral defense modulated by interferon signaling.","confidence":"High","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0035455","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0045087","count":1},{"id":"GO:0007638","count":1}]},{"hash":"1384583577557263700","title":"Spliceosome-Driven mRNA Processing and Translation Initiation","description":"Most terms cluster around post-transcriptional control: regulation of mRNA splicing via the spliceosome, mRNA stability under stress, and steps in translation initiation and reinitiation (including viral IRES-dependent initiation). This suggests the proteins in this cluster function together in RNA processing and initiation control.","confidence":"High","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:0048025","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0048026","count":4}]},{"hash":"380823351144630202","title":"Sodium/Potassium Ion Transport and Membrane Potential","description":"The top GO terms cluster around regulation and movement of Na+ and K+ ions across membranes, maintenance of the transmembrane electrochemical gradient, and membrane potential (including cardiac muscle context). While a few terms reference innate immunity and adipose signaling, the strongest shared theme is ion transport and membrane potential homeostasis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":2},{"id":"GO:1990573","count":1},{"id":"GO:0036376","count":1},{"id":"GO:0010248","count":1},{"id":"GO:1903278","count":1}]},{"hash":"358382737977327478","title":"Metal Ion Transport Across Membranes","description":"The top GO terms show multiple transmembrane transport activities for metal ions (copper, zinc, cadmium), suggesting the proteins are involved in metal ion uptake/efflux and homeostasis. Other terms in the list are more diverse (serine biosynthesis, lipid-related processes, P450 pathway, testosterone response) and do not form a tight common theme, so the strongest coherent signal is metal ion transport across membranes.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":2},{"id":"GO:0006564","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0006825","count":2}]},{"hash":"1733528167237062597","title":"Neural development and GABAergic signaling","description":"The top GO terms are dominated by brain and nervous system development and GABAergic synaptic transmission, suggesting the core of this cluster centers on neural differentiation and inhibitory signaling. While terms like keratinization and ossification appear, the strongest signals point to neural development and synaptic function, with Hedgehog signaling and polarity-related terms providing broader developmental context.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0045176","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0007399","count":2}]},{"hash":"243713725157324751","title":"MAPK/ephrin signaling in neural development","description":"This cluster shows enrichment for MAPK-related activity and ephrin receptor signaling, with terms like retinal ganglion cell axon guidance and positive regulation of neurite outgrowth, suggesting a theme of signaling pathways guiding neural development and axon navigation. Additional terms point to broader developmental processes (skeletal/cardiac muscle differentiation, focal adhesion regulation), indicating a broader developmental signaling module. Overall, the link to MAPK signaling and Eph/ephrin-mediated axon guidance provides a coherent, if broad, developmental theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000187","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0031290","count":2},{"id":"GO:0051893","count":2}]},{"hash":"481844678731621065","title":"Immune activation and tissue remodeling","description":"This cluster includes immune-related processes such as monocyte chemotaxis, phagocytosis, and T cell proliferation, along with Notch signaling, and ECM remodeling activities like collagen fibril organization and fibrinolysis, plus a glucocorticoid response, suggesting coordinated immune activity with tissue remodeling. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071385","count":3},{"id":"GO:0002548","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0007589","count":2}]},{"hash":"1131434004145099171","title":"ER-associated protein quality control and membrane insertion","description":"The dominant GO terms are protein deubiquitination, ERAD-related maintenance, and tail-anchored membrane protein insertion into the ER membrane, which together point to endoplasmic reticulum\u2013associated protein quality control and membrane handling. Some terms (like neuronal development) seem incidental, but overall the cluster centers on ER protein folding, degradation, and trafficking rather than a single signaling pathway.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:1904378","count":3},{"id":"GO:0021888","count":3},{"id":"GO:0034140","count":3},{"id":"GO:0010216","count":3}]},{"hash":"867509920070240532","title":"Unknown","description":"The top GO terms span neural learning (visual learning, operant conditioning) and broad signaling/immune processes (adenylate cyclase and PLC pathways, IL-8 production, eosinophil chemotaxis), as well as vascular and gut-related terms. There isn\u2019t a single cohesive function uniting these terms, so a precise, meaningful cluster label cannot be assigned beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0035106","count":4},{"id":"GO:0007190","count":4},{"id":"GO:2000484","count":4},{"id":"GO:0007208","count":4}]},{"hash":"276923514076653973","title":"Innate and B cell immune activation with phagocytosis","description":"The top GO terms cluster around innate immunity (innate response, complement activation, phagocytosis) and adaptive signaling (B cell receptor signaling, positive regulation of B cell activation), plus related processes like macrophage regulation and cell adhesion, indicating a cohesive immune activation module spanning both innate and adaptive arms and related phagocytic activity.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0043031","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0050853","count":4}]},{"hash":"58764701442662785","title":"Complement activation and immune signaling","description":"The top GO terms cluster around immune system activity, especially complement system activation (classical and alternative) and activation of the membrane attack complex, plus T cell costimulation and cell adhesion aspects. Some developmental terms appear, but the dominant theme is immune activation and regulation via the complement pathway and immune cell interactions.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034392","count":3},{"id":"GO:0044332","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0001970","count":3},{"id":"GO:0001701","count":3}]},{"hash":"1380318049767871980","title":"Unknown","description":"The top GO terms show a highly diverse mix of metabolic biosynthesis processes (androgen, testosterone, triglyceride, calcitriol, aldosterone, oxylipin, isoquinoline alkaloid) along with unrelated terms (sporulation, uterus development). There is no clear, single biological theme or cohesive pathway linking these terms, making a meaningful, specific cluster label unreliable.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030435","count":2}]},{"hash":"1192434216559172727","title":"Steroid and lipid metabolism","description":"The top GO terms cluster around steroid biosynthesis (calcitriol, aldosterone, brassinosteroids) and lipid-derived pathways (oxylipins, fatty acid omega-oxidation, lipid hydroxylation). Several terms touch xenobiotic and secondary metabolite catabolism, but the dominant pattern is steroid and lipid metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036378","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0032342","count":5},{"id":"GO:0031408","count":5},{"id":"GO:0033076","count":5}]},{"hash":"911639603094149143","title":"Glycolysis, glyoxylate cycle, and oxidative stress responses","description":"These terms cluster around central carbon metabolism (glycolysis, glyoxylate cycle, malate metabolism, lactate fermentation) with glucose response, and include oxidative stress responses (hydrogen peroxide, xenobiotic stimulus), plus regulation of photorespiration. This suggests a module of energy metabolism that also engages redox and stress signaling, likely plant-related.","confidence":"Medium","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0042542","count":1},{"id":"GO:0080093","count":1},{"id":"GO:0006097","count":1}]},{"hash":"2301212886812282299","title":"Nucleotide metabolism and salvage","description":"The cluster is dominated by GO terms for nucleotide interconversion and salvage (purine ribonucleotide interconversion, AMP salvage, ADP and CDP biosynthesis, ITP metabolism, nucleotide phosphorylation), pointing to enzymes that process and interconvert nucleotides. A pair of development terms (liver and brain development) appear but are unlikely to define the cluster's core function; they may reflect broader annotations.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015951","count":6},{"id":"GO:0044209","count":6},{"id":"GO:0046940","count":6},{"id":"GO:0006172","count":6},{"id":"GO:0046705","count":6}]},{"hash":"1838880223571974329","title":"Purine Nucleotide and Folate Biosynthesis","description":"Most terms point to nucleotide biosynthesis (purine nucleobase and purine nucleotide biosynthetic processes) and related folate interconversion, including tetrahydrofolate-related steps. A few terms are unrelated (neutrophil homeostasis, embryonic morphogenesis), likely annotation noise. Overall, the shared function is best captured by a nucleotide/folate biosynthesis theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009113","count":4},{"id":"GO:0001780","count":4},{"id":"GO:0048702","count":4},{"id":"GO:0035999","count":4},{"id":"GO:0009257","count":4}]},{"hash":"2247971235480170898","title":"Osmotic Stress Response and Sugar Metabolism","description":"The top GO terms cluster around responses to flooding and water deprivation (osmotic stress) and responses to sugars (sucrose, sorbitol), along with starch biosynthesis, indicating a link between osmotic stress adaptation and carbohydrate metabolism. Some terms are obsolete or peripheral (mycothiol biosynthetic process, GPI anchor biosynthesis), but the dominant pattern supports a role in osmotic stress signaling coupled to carbohydrate-related processes. This label is representative of the cluster\u2019s apparent functional theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009413","count":2},{"id":"GO:0010125","count":2},{"id":"GO:0009744","count":2},{"id":"GO:0072708","count":2}]},{"hash":"544110778443206681","title":"Unknown","description":"The GO terms include diverse developmental processes across species (neural, cardiac, pancreatic, plant ovule) plus cell adhesion and cytoskeleton terms, with no clear common pathway or function tying all proteins together. Therefore a simple, unified label cannot be supported.","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":6},{"id":"GO:0048482","count":6},{"id":"GO:0055011","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0035849","count":6}]},{"hash":"1438296883539369514","title":"Fatty acid and vitamin metabolism","description":"This cluster is characterized by GO terms related to fatty acid beta-oxidation and the biosynthesis of vitamins (menaquinone, phylloquinone), along with several small-molecule catabolic processes (phenylacetate, L-valine) and antibiotic biosynthesis, suggesting a coherent theme of lipid and vitamin-related metabolism with associated small-molecule pathways; the additional, unrelated terms likely reflect broader cellular processes in the dataset.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0042372","count":2},{"id":"GO:0006574","count":2}]},{"hash":"1577511014133880802","title":"Stimulus-responsive signaling and cell migration","description":"The top GO terms cluster around signaling cascades (STAT tyrosine phosphorylation, ERK1/2 cascade) and responses to multiple stimuli (TGF-beta, insulin, retinoic acid), along with calcium signaling and migratory/chemotactic processes (smooth muscle migration, neutrophil chemotaxis) and a stress-related response (cold). This suggests a broad theme of cells sensing diverse stimuli and activating signaling pathways that coordinate migration and other responses. Confidence: Medium","confidence":"","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042531","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0032869","count":5},{"id":"GO:0071300","count":5}]},{"hash":"548541685894616469","title":"Ribosome Biogenesis & Cell Cycle","description":"The cluster is dominated by GO terms for ribosome biogenesis (including small subunit biogenesis) and mitotic cell cycle, suggesting these proteins may coordinate protein synthesis with cell division. Additional terms for polarity and cellular fusion indicate broader cellular roles rather than a single focused function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901001","count":2},{"id":"GO:0042274","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0010458","count":2}]},{"hash":"494738704067565071","title":"Neutrophil adhesion, migration, and phagocytosis via integrin signaling","description":"These proteins cluster around neutrophil responses: directional movement toward signals (neutrophil chemotaxis), adhesion through integrin signaling and substrate-driven spreading, cytoskeletal regulation (Rho/Ras), and uptake of targets (phagocytosis). Some terms touch on lipid particle stimuli and PDGF signaling, suggesting receptors that modulate migration and activation in inflammatory contexts. Together they point to a cohesive neutrophil adhesion/migration/phagocytosis module.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071404","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0034446","count":3}]},{"hash":"1789813009659168718","title":"Fc receptor signaling and phagocytosis activation","description":"The cluster is dominated by immune-related terms such as Fc-gamma receptor signaling, basophil activation, phagocytosis recognition, platelet activation, and NK cell chemotaxis regulation, pointing to antibody-mediated immune activation and phagocyte responses; a few kidney/vasculature morphogenesis terms appear less connected and may be incidental. ","confidence":"High","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":5},{"id":"GO:0010572","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0072287","count":3},{"id":"GO:0036303","count":3}]},{"hash":"1041518932093999833","title":"Innate Immune Signaling and Leukocyte Activation","description":"Most terms cluster around innate immune pathways and leukocyte signaling (complement activation via lectin pathway, basophil activation, Fc-gamma receptor signaling, and regulation of NK cell chemotaxis, plus responses to fungal origin and arachidonate signaling). The kidney development terms are present but less central, suggesting the core function is immune-related. ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0072287","count":3},{"id":"GO:0036303","count":3},{"id":"GO:0045575","count":3},{"id":"GO:2000502","count":3}]},{"hash":"122288058597418747","title":"Neural sensory development and synapse organization","description":"The top GO terms cluster around nervous system development and connectivity: auditory receptor cell development, trigeminal nerve development, cortex-related development via FGF signaling, and synapse organization/collateral sprouting. Together they point to processes shaping sensory neurons and their synaptic connections. A few hematopoietic differentiation terms appear but are less central to the main theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":6},{"id":"GO:0060117","count":6},{"id":"GO:1905065","count":6},{"id":"GO:0050808","count":6},{"id":"GO:0021740","count":6}]},{"hash":"651931714282315812","title":"Integrated innate and adaptive immune response","description":"Top terms indicate strong involvement in both innate defense and adaptive processes: innate immune response and defenses against bacteria, complement activation, as well as T cell\u2013related regulation and cytotoxicity, and antigen processing/presentation via MHC class Ib. This suggests a immune cluster bridging innate recognition with adaptive activation and antibody-mediated responses.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0002726","count":3},{"id":"GO:0033216","count":3}]},{"hash":"45294934015167945","title":"Protein modification and Ca2+-regulated neural signaling","description":"The top GO terms cluster around protein post-translational modifications (sumoylation, autoubiquitination) and calcium-related signaling impacting neural processes (cellular response to calcium, dendrite extension, GnRH neuron development). Despite some unrelated terms, the recurring themes point to PTM-linked calcium signaling in neural contexts, justifying this label.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0071277","count":2},{"id":"GO:1903861","count":2}]},{"hash":"2211074399051057523","title":"Unknown","description":"The terms span diverse areas including autophagy, cofactor and vitamin biosynthesis, cell-cycle and transcription regulation, protein modification, and development, with no single clear functional theme tying all proteins together. This makes it inappropriate to assign a specific, cohesive label beyond Unknown. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":5},{"id":"GO:0061504","count":4},{"id":"GO:0006777","count":4},{"id":"GO:0018192","count":4},{"id":"GO:0032258","count":4}]},{"hash":"1713519178836715114","title":"Brain development and vesicle trafficking","description":"The cluster\u2019s GO terms point to neural development (brain development, neural tube patterning, interneuron migration) together with vesicle trafficking and lysosome/autophagy processes (COPII coating, exocytosis regulation, endosome/lysosome transport, lysosomal membrane organization, phagophore assembly). This suggests proteins involved in brain development that also participate in intracellular transport and autophagy pathways, justifying a combined label.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051519","count":5},{"id":"GO:0021830","count":5},{"id":"GO:0003400","count":5},{"id":"GO:0045956","count":5},{"id":"GO:0097212","count":5}]},{"hash":"208869286378157366","title":"Nuclear transport and RNA export","description":"The top GO terms cluster around trafficking of materials into and out of the nucleus, including protein import into the nucleus, protein export from the nucleus, and poly(A)+ mRNA export, with supporting vesicle transport (Golgi to ER). Ribophagy is present but secondary, and a term like light absorption may be incidental noise, so the core signal is nuclear-cytoplasmic transport.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034517","count":2},{"id":"GO:0045571","count":2},{"id":"GO:0006611","count":2},{"id":"GO:0042307","count":2},{"id":"GO:0000060","count":2}]},{"hash":"748098696591061071","title":"Ubiquitin-dependent protein turnover and trafficking","description":"The cluster prominently features ubiquitin-related processes (ubiquitin-dependent protein catabolic process and K63-linked deubiquitination) and endomembrane trafficking terms (protein retention in Golgi, late endosome to vacuole transport), suggesting a shared function in protein turnover and vesicular trafficking. Some other terms (seed morphogenesis, egg chamber development, triglyceride storage) appear less connected and may reflect background noise.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0030730","count":2},{"id":"GO:0030707","count":2},{"id":"GO:0048482","count":1},{"id":"GO:0035640","count":1}]},{"hash":"509931017137585352","title":"Actin Cytoskeleton Dynamics and Cell Polarity","description":"The cluster is dominated by terms related to actin organization and cytoskeletal regulation (microspike assembly, actin crosslinking, cortical actin localization) and processes that shape and move cells (cell polarity, cell shape, Rho signaling, endocytic recycling, adhesion). A couple of terms mention mitosis and IL-2, but the strongest, recurrent themes point to actin dynamics and polarity/adhesion. ","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0030035","count":2},{"id":"GO:0045737","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0071963","count":2}]},{"hash":"2232245654276229156","title":"Mitochondrial metabolism and neuromuscular function","description":"This cluster centers on mitochondrial-related processes (cellular response to insulin stimulus, apoptotic mitochondrial changes, regulation of lipid metabolism, coenzyme A transport) and neuromuscular activity (neuromuscular process, musculoskeletal movement). While a couple of terms seem less connected (buoyancy regulation, myelination), the dominant signals point to energy metabolism tied to insulin signaling and muscle/nerve function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0008637","count":2},{"id":"GO:0031641","count":2},{"id":"GO:0070584","count":1},{"id":"GO:0019216","count":1}]},{"hash":"253910563712510699","title":"Neuronal synaptic vesicle exocytosis","description":"Top GO terms are dominated by synaptic processes: synapse assembly, neurotransmitter secretion, vesicle fusion, and regulation of synaptic vesicle exocytosis, indicating a cluster of proteins involved in presynaptic vesicle trafficking and synapse formation. While a couple of terms touch on neural development and signaling pathways (e.g., neural plate axis specification and VEGF signaling), the strongest signal centers on synaptic vesicle exocytosis, supporting a label focused on neuronal synaptic vesicle dynamics.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0021997","count":1},{"id":"GO:2000300","count":1}]},{"hash":"834732540377370200","title":"Cardiac electrophysiology and calcium signaling","description":"This cluster is enriched for GO terms tied to heart function and excitation\u2013contraction coupling, including stabilization of membrane potential, regulation of heart rate by cardiac conduction, left ventricular cardiac muscle tissue morphogenesis, and positive regulation of calcium ion transport. Taken together, these terms point to a coherent theme of cardiac electrophysiology and Ca2+ signaling. Some terms (regulation of T cell cytokine production, detection of chemical stimuli involved in pain, and circadian rhythm regulation) are more peripheral or reflect protein pleiotropy, but do not override the core cardiac signal.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030322","count":3},{"id":"GO:0048532","count":3},{"id":"GO:0002724","count":3},{"id":"GO:0042753","count":3},{"id":"GO:0003031","count":3}]},{"hash":"1434591715569716400","title":"Neural development and caveolin-mediated endocytosis","description":"The GO terms are dominated by neural development signals (central nervous system neuron development, cerebellum development, orbitofrontal cortex signaling, lens development) and include caveolin-mediated endocytosis, pointing to proteins involved in brain development and membrane trafficking. A few terms related to immune signaling or obsolete terms are present but do not define the core theme. Thus, a neural-development oriented label with a caveolin endocytosis component fits best. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":6},{"id":"GO:0002088","count":6},{"id":"GO:0021954","count":6},{"id":"GO:0033160","count":6},{"id":"GO:0016477","count":6}]},{"hash":"444121156280510531","title":"Unknown","description":"The terms span ion transport (sodium and potassium export), muscle contraction, sensory response, immune differentiation, and amino acid metabolism, with no consistent enrichment or shared pathway across the proteins. Edges are absent and counts are all 1, so there isn't a single unifying function to name.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032534","count":1},{"id":"GO:0097755","count":1},{"id":"GO:0003011","count":1},{"id":"GO:0010996","count":1},{"id":"GO:0051208","count":1}]},{"hash":"2100484967255369478","title":"Ubiquitin-Dependent Immune Regulation","description":"The proteins are enriched for ubiquitination and ubiquitin-dependent catabolic processes, with additional immune-related terms (innate immune response, B cell homeostasis, T cell proliferation, suppression of viral release by host), suggesting a role in ubiquitin-mediated control of immune signaling. Despite no edges, the common GO annotations point to involvement in tagging proteins for degradation and modulating immune pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0048536","count":3},{"id":"GO:0000209","count":2},{"id":"GO:1902187","count":2},{"id":"GO:0001782","count":2}]},{"hash":"1544924772487076559","title":"Cerebellar neuron development and calcium signaling","description":"The top GO terms cluster around cerebellar development (granular layer development, Purkinje cell differentiation) and calcium handling (ER calcium homeostasis, calcium ion transport into cytosol), suggesting a theme of cerebellar neuron development coordinated with calcium signaling. Several terms involve negative regulation of apoptotic signaling, which can relate to neuronal survival in the developing cerebellum, while a few terms like response to L-glutamate reflect neuronal signaling context. Overall, a concise label is cerebellar neuron development with calcium signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051025","count":1},{"id":"GO:0060702","count":1},{"id":"GO:1902042","count":1},{"id":"GO:1903298","count":1},{"id":"GO:1902065","count":1}]},{"hash":"1127014636346223205","title":"Lipid remodeling and signaling","description":"Most of the high-frequency GO terms point to lipid metabolism and membrane lipid remodeling, notably ether lipid biosynthesis, phosphatidylcholine remodeling, and CDP-diacylglycerol biosynthesis, plus platelet activating factor biosynthesis. This suggests a cohesive theme around lipid biosynthesis and lipid-mediated signaling, even though a few terms (e.g., antibiotic response, cerebellum morphogenesis) may reflect broader or incidental annotations. Overall, the lipid-related terms dominate the cluster\u2019s functional signal, supporting a lipid remodeling/signaling label.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0002071","count":2},{"id":"GO:0006663","count":2},{"id":"GO:0008611","count":2}]},{"hash":"1939736025747416385","title":"RNA Pol II Transcription Regulation","description":"This cluster centers on transcriptional control by RNA polymerase II, with GO terms for DNA-templated transcription and negative regulation of transcription by RNA polymerase II. While a few terms touch on stress or signaling responses (LPS response, TGF-\u03b2 stimulus, hydrogen peroxide biosynthesis), the dominant signal is transcriptional regulation by Pol II.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070895","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046022","count":2},{"id":"GO:0007576","count":2}]},{"hash":"863870431054894644","title":"Unknown","description":"GO terms span immune functions, cellular stress responses, and RNA processing, with no single cohesive theme and no edges linking proteins, so a specific, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002931","count":2},{"id":"GO:0072137","count":1},{"id":"GO:0002236","count":1},{"id":"GO:1903427","count":1},{"id":"GO:1904874","count":1}]},{"hash":"340593363921883507","title":"Endocytosis, trafficking, and cytoskeletal signaling","description":"This cluster is dominated by terms related to membrane trafficking and signaling, including caveolin-mediated endocytosis, regulation of endocytic recycling, GPCR signaling pathways, ruffle assembly, and cell migration, along with ubiquitin-dependent protein turnover. While a couple of terms (meiotic recombination and apoptotic process) are less connected to these themes, the core signal points to endocytosis, trafficking, and cytoskeletal dynamics driving cellular signaling. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":2},{"id":"GO:0006311","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0072584","count":1},{"id":"GO:0016477","count":1}]},{"hash":"1726625422920723137","title":"Keratinization","description":"The only standout GO term is keratinization (GO:0031424), appearing three times among the top terms, suggesting these proteins participate in epidermal keratin formation and cornified envelope assembly. Thus, a Keratinization label best captures the cluster's shared function.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":3}]},{"hash":"1304936310657705343","title":"Chromatin remodeling and developmental transcription regulation","description":"Reason: The top terms cluster around chromatin assembly/remodeling and transcription initiation, with additional links to developmental processes such as muscle morphogenesis and organ development (BMP signaling, ureteric bud morphogenesis), suggesting regulation of gene expression via chromatin state during development.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071392","count":3},{"id":"GO:0006335","count":3},{"id":"GO:0045815","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0043966","count":3}]},{"hash":"466550677003972609","title":"Embryonic tissue development","description":"Top GO terms point to embryonic development across neural, cardiac, and axial tissues (midbrain development, retinal ganglion cell axon guidance, rhombomere morphogenesis/development, somite specification, Purkinje and AV-node differentiation, uterus development). This suggests a common theme of developmental patterning and organogenesis rather than a single pathway. The presence of transcriptional regulation terms indicates regulatory control during these processes. Overall, the cluster appears to reflect broad embryonic patterning roles.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0031290","count":2},{"id":"GO:0021569","count":2},{"id":"GO:0060065","count":2}]},{"hash":"1693111498353622410","title":"Embryonic tissue morphogenesis","description":"The top GO terms point to developmental processes across diverse tissues (retina, hindbrain rhombomere, somites, inner ear, hindlimb, uterus, AV node), indicating a shared theme of embryonic morphogenesis and organogenesis rather than a single tissue-specific function.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":5},{"id":"GO:0021569","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0003168","count":5},{"id":"GO:0060928","count":5}]},{"hash":"1187143699101331228","title":"Neural development and axon guidance signaling","description":"This cluster's proteins are associated with neural development and guidance processes, evidenced by GO terms like retinal ganglion cell axon guidance, forebrain cell migration, synapse organization, and regulation of signaling pathways (BMP, MAPK, PI3K/AKT). While some terms touch broader development, the cohesive theme centers on neural differentiation, migration, and synaptic organization.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":5},{"id":"GO:0031290","count":5},{"id":"GO:0043491","count":5},{"id":"GO:0021885","count":5},{"id":"GO:0050808","count":5}]},{"hash":"707555430858943026","title":"Actin Cytoskeleton Dynamics and Organization","description":"The cluster\u2019s GO terms are dominated by actin-related processes: Arp2/3-mediated actin nucleation, actin cortical patch assembly, postsynaptic actin cytoskeleton organization, mitotic actomyosin contractile ring assembly, and phagocytosis. These collectively point to a core role in actin cytoskeleton remodeling and structural regulation, with secondary ties to cell polarity and shape. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":5},{"id":"GO:0043981","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0006909","count":5},{"id":"GO:0010628","count":5}]},{"hash":"1398238879614831949","title":"Embryonic Development and Neural Crest Morphogenesis","description":"The terms show a convergence on embryonic development and neural crest\u2013driven morphogenesis, with a consistent emphasis on transcriptional regulation during development (DNA-templated transcription and negative regulation of RNA Pol II). Together they point to proteins that govern gene expression programs critical for neural crest migration, hindlimb and heart formation, cochlea morphogenesis, and placenta development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0021903","count":2},{"id":"GO:0035116","count":2}]},{"hash":"1315959531121002121","title":"Mixed Metabolic and Stress-Response Pathways","description":"The top GO terms cover a wide range of metabolic activities (carbohydrate, amino acid, lipid, retinol, formaldehyde metabolism) plus plant-specific lignin biosynthesis and some stress/physiological responses (nitrosative stress, respiratory system, blood pressure). This spread suggests no single shared function for the cluster; instead, the proteins appear to be involved in various metabolic routes and related stress/physiological processes. Confidence: Medium","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046370","count":2},{"id":"GO:0000947","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0010430","count":2},{"id":"GO:0045777","count":2}]},{"hash":"56477981612347508","title":"Ubiquitin/ISG15 signaling in immunity and cell cycle","description":"The cluster is enriched for ubiquitin-related processes (K11-linked ubiquitination, ubiquitin-proteasome pathway for cytoplasmic protein quality control) and ISG15 conjugation, along with immune signaling pathways (TRIF-dependent TLR signaling and T cell receptor signaling). A few cell-cycle terms (exit from mitosis, spindle assembly checkpoint deactivation) suggest broader regulatory roles, but the strongest coherence lies in ubiquitin/ISG15-mediated regulation in immunity and protein quality control.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":5},{"id":"GO:0030466","count":5},{"id":"GO:0071629","count":5},{"id":"GO:0010458","count":5},{"id":"GO:1902426","count":5}]},{"hash":"1932021286129566803","title":"Blood coagulation and innate immune defense","description":"This cluster is dominated by blood coagulation terms (GO:0007596) and complement activation, with related acute-phase and defense response terms, suggesting a core theme around coagulation intertwined with innate immune defense. Some developmental/digestive terms appear as peripheral signals, but the main driver appears to be coagulation linked to immune responses.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0006958","count":2},{"id":"GO:0061113","count":1},{"id":"GO:0055123","count":1},{"id":"GO:0071333","count":1}]},{"hash":"1711793681216974771","title":"Embryonic development and patterning","description":"The top GO terms cluster around early development and body plan formation: somite specification and somitogenesis regulation, primitive streak formation, midbrain development, and muscle/gonad development, with coordinated transcriptional regulation by RNA polymerase II. This points to a core developmental program and axis patterning across tissues.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0060065","count":2},{"id":"GO:0001757","count":2},{"id":"GO:0007517","count":2},{"id":"GO:0008045","count":2}]},{"hash":"105871299583260503","title":"Stimulus-responsive ion channel regulation","description":"The proteins show GO terms spanning cellular responses to multiple stimuli (glucose, nicotine, dsRNA, ischemia) and concurrent regulation of membrane repolarization and cation channel activity, including heart-rate/conduction and skeletal muscle relaxation. This points to a common theme of stimulus-driven ion-channel\u2013mediated signaling affecting muscle and cardiac function, with wing disc development likely reflecting broader developmental context. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0071333","count":5},{"id":"GO:0043330","count":5},{"id":"GO:0002931","count":3},{"id":"GO:0060306","count":3},{"id":"GO:0098914","count":3}]},{"hash":"545571446926697730","title":"RNA and Protein Methylation","description":"The cluster is dominated by GO terms for methylation of RNA and proteins (rRNA methylation, peptidyl-arginine/glutamine methylation, and histone methylation), suggesting a theme of methylation-driven regulation at RNA, ribosomal, and chromatin levels. Some peripheral terms (cobalamin biosynthesis, senescence, transcription regulation) are less central but not contradictory. Overall, the methylation-centric interpretation best ties the main terms together.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":3},{"id":"GO:0019919","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0018364","count":2}]},{"hash":"373903162202918691","title":"Neural development and signaling pathways","description":"This cluster shows several neural-development related terms (retinal ganglion cell axon guidance, forebrain cell migration, synapse organization) alongside key signaling cascades (BMP, MAPK, PI3K/AKT). The common thread appears to be roles in neural patterning, connectivity, and regulation by signaling pathways, rather than a single tissue-specific function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0043491","count":3},{"id":"GO:0021885","count":3},{"id":"GO:0050808","count":3}]},{"hash":"1084746972180793339","title":"Regulation of transcription and cell growth","description":"The GO terms are dominated by regulatory processes affecting gene expression (negative regulation of transcription by RNA Pol II, CREB activity, estrogen receptor signaling) and cell proliferation/growth (lens epithelial proliferation, initiation of primordial ovarian follicle growth). There are additional miscellaneous regulatory terms (IL-2 production, wound detection, EMT) that fit under broader regulation themes, suggesting the cluster centers on regulatory control of transcription and growth signals rather than a single precise function.","confidence":"Low","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0003146","count":2},{"id":"GO:0045085","count":2},{"id":"GO:0032792","count":2}]},{"hash":"761327560235524639","title":"Redox Metabolic Processes","description":"The top GO terms emphasize oxidation-reduction (redox) activities connected to multiple metabolic pathways, including retinol metabolism, fructose biosynthesis, fatty acid omega-oxidation, glucose catabolism, and amino-acid\u2013to\u2013alcohol transformation, suggesting a cluster centered on redox-driven biotransformations rather than a single pathway. Some terms appear as outliers (e.g., lignin biosynthesis, certain stress or hormone-related responses), but the dominant signal is redox-associated metabolism across varied substrates. Confidence: Medium","confidence":"","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042572","count":3},{"id":"GO:0046370","count":2},{"id":"GO:0000947","count":2},{"id":"GO:0010430","count":2}]},{"hash":"738200526456062318","title":"Metabolic Biosynthesis and Catabolism","description":"The top terms point to a mix of catabolic and biosynthetic metabolic processes (uracil catabolic process, triglyceride catabolic process, biotin biosynthetic process, strigolactone and antibiotic biosynthesis) and related detoxification activities. There is no tight, single function linking the proteins, and there are no edges between them, suggesting a broad metabolic role rather than a specific pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006212","count":4},{"id":"GO:0098869","count":4},{"id":"GO:1901601","count":3},{"id":"GO:0097755","count":3}]},{"hash":"1333340942935733133","title":"Lymphocyte Activation and Immune Effector Functions","description":"This cluster is enriched for immune-related processes such as B cell cytokine production, isotype switching, and T cell\u2013mediated responses, indicating lymphocyte activation and effector signaling. The inclusion of RNA localization to Cajal bodies and stress/ischemia-related terms suggests additional links to nuclear RNA processing and cellular stress, but the dominant theme remains immune activation in lymphocytes.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002236","count":5},{"id":"GO:1903427","count":5},{"id":"GO:1904874","count":5},{"id":"GO:0002368","count":5},{"id":"GO:0002931","count":5}]},{"hash":"1008640810791709604","title":"Cytoskeletal Dynamics in Immune Cell Migration","description":"The cluster\u2019s top GO terms center on actin remodeling and endocytosis (caveolin-mediated endocytosis, actin filament branching, patch assembly, ruffle formation) as well as cell movement and dendritic cell chemotaxis, pointing to cytoskeletal rearrangements driving immune cell migration and endocytic trafficking; some terms like uterus development or translation initiation appear incidental. ","confidence":"High","size":5,"edges":6,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072584","count":4},{"id":"GO:0090135","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0060152","count":4}]},{"hash":"640141077318067641","title":"Neural development and cell adhesion","description":"The main signal in this cluster is neural development coupled with cell\u2013cell adhesion, as shown by terms for homophilic/heterophilic and calcium-dependent adhesion, nervous system development, and synapse assembly (with related processes like corticospinal tract morphogenesis and radial glial differentiation). Some terms touch on ossification, but the dominant theme centers on neural development and adhesion, justifying this label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0051965","count":4}]},{"hash":"2084006477307527067","title":"Neural development and synapse organization","description":"This cluster is dominated by GO terms related to neural development (neural plate axis specification, convergent extension in neural plate elongation) and synaptic function (synapse organization, regulation of synaptic vesicle exocytosis), supported by phosphatidylinositol-mediated signaling. While there are a few terms touching on broader signaling or neurovascular contexts, the strongest common theme ties to neural development and synaptic connectivity.","confidence":"Medium","size":5,"edges":6,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048015","count":4},{"id":"GO:0035640","count":3},{"id":"GO:0021997","count":3},{"id":"GO:0050808","count":3},{"id":"GO:2000670","count":3}]},{"hash":"874411990376446496","title":"SCF-Dependent Ubiquitin-Proteasome Proteolysis","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic process, protein polyubiquitination, and SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, pointing to proteolysis via the ubiquitin-proteasome system, particularly SCF ligases. The presence of regulation of circadian rhythm suggests a temporal aspect to this proteolysis. While there are some stress-response terms (cadmium, methylmercury), the central theme is ubiquitin-mediated degradation with SCF involvement.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0042752","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0071406","count":2}]},{"hash":"1571585279653298291","title":"Neural and vascular development with cadherin adhesion","description":"This cluster combines neural development processes (neuronal stem cell maintenance, corticospinal tract morphogenesis, synaptic transmission, regulation of synaptic vesicle clustering) with vascular development (blood vessel maturation, endothelial delamination, lumen-related processes) and cadherin-mediated cell\u2013cell adhesion, pointing to proteins involved in coordinated morphogenesis across neural and vascular tissues.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":3},{"id":"GO:0044331","count":3},{"id":"GO:0001955","count":3},{"id":"GO:0021957","count":2},{"id":"GO:0007268","count":2}]},{"hash":"1717601406857980330","title":"Pollen development and pollen wall biosynthesis","description":"The strongest signals are GO:0010584 pollen exine formation and GO:0009901 anther dehiscence, both classic markers of pollen development and pollen wall biosynthesis. The presence of GO:0006487 protein N-linked glycosylation suggests secreted or cell-wall\u2013associated proteins involved in wall formation, while other terms (nucleotide catabolic processes, misfolded protein detection, ROS regulation) may reflect metabolic needs and quality control during pollen development. Overall, the cluster most coherently maps to pollen development and pollen wall biosynthesis.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010584","count":2},{"id":"GO:0046712","count":2},{"id":"GO:0071405","count":2},{"id":"GO:0009901","count":2},{"id":"GO:0006487","count":2}]},{"hash":"920449430782266586","title":"DNA replication and cell cycle proteins","description":"This cluster is dominated by GO terms tied to cell division, mitotic cell cycle, and DNA-templated transcription, with additional signals for DNA repair and DNA recombination, suggesting core involvement in genome maintenance during cell cycle progression. Other terms like cellular response to oxidative stress, heat acclimation, and endosomal microautophagy appear less prominently, indicating secondary or context-specific roles rather than a distinct pathway. Thus, labeling it as DNA replication and cell cycle proteins captures the most representative and frequent themes across the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0019079","count":1}]},{"hash":"1964560686424517420","title":"Cardiac Conduction and Heart Development","description":"The top GO terms are dominated by cardiac electrophysiology and regulation of heart rate (AV node action potential, atrial depolarization, ventricular repolarization, and conduction), pointing to a core function in heart rhythm control. Development terms appear but do not override the cardiac theme, justifying a label that emphasizes cardiac conduction with a developmental context.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0086091","count":4},{"id":"GO:0060371","count":4},{"id":"GO:0060307","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043931","count":4}]},{"hash":"336130938200862603","title":"Cytoplasmic translation and ribosome assembly","description":"The cluster's top GO terms center on translation and ribosome function (translation, cytoplasmic translation, ribosomal large subunit assembly, translational termination), indicating the proteins likely participate in protein synthesis machinery in the cytoplasm. A few signal transduction terms are incidental rather than defining the group.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000027","count":1},{"id":"GO:0015968","count":1},{"id":"GO:0006415","count":1},{"id":"GO:0002181","count":1}]},{"hash":"1176856753851124501","title":"T cell activation and cytokine signaling","description":"The top GO terms cluster around T cell\u2013related processes: T cell receptor signaling, T cell costimulation, and positive regulation of IL-2 and IL-6 production, which point to T cell activation and cytokine communication. Additional terms involve antigen processing/presentation via MHC I and immunoglobulin-mediated responses, reinforcing a theme of adaptive immune activation. Some platelet-related terms appear, suggesting potential platelet\u2013immune cross-talk, but the dominant signal is T cell\u2013driven activation and cytokine signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045086","count":1},{"id":"GO:0016064","count":1},{"id":"GO:0071404","count":1},{"id":"GO:0032755","count":1},{"id":"GO:0002554","count":1}]},{"hash":"543234056382029496","title":"Axon guidance and neural development","description":"Based on the dominant GO terms, this cluster centers on neural development and axon guidance, with semaphorin-plexin signaling, commissural neuron guidance, and retina/dorsal root ganglion morphogenesis as key themes. While there are vascular and metabolic terms present, the strongest signal relates to neural pathway formation and guidance cues.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0048010","count":2},{"id":"GO:0010842","count":1},{"id":"GO:1902287","count":1},{"id":"GO:1904835","count":1}]},{"hash":"1283443651975730741","title":"Caveolin-mediated endocytosis and actin-driven cell migration","description":"This cluster centers on membrane trafficking and cytoskeletal remodeling, with GO terms for caveolin-mediated endocytosis, actin filament branching, actin cortical patch assembly, and cell migration including dendritic cell chemotaxis and ruffle assembly. Together these imply a functional theme of endocytic uptake coupled to actin dynamics that enable immune cells to move and respond to stimuli. Additional terms (innate immune response) support an immunological context, while some terms like uterus development and cap-independent translation initiation may reflect broader regulatory roles but do not override the main theme. Therefore the label captures the dominant biology.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0072584","count":5},{"id":"GO:0090135","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0060152","count":5}]},{"hash":"1168917576376489723","title":"Proteostasis and Cytoskeleton Dynamics","description":"The cluster highlights protein quality control and folding pathways (ubiquitin-proteasome system, chaperone-mediated assembly) alongside cytoskeletal organization and vesicle trafficking (tubulin and actin assembly, cortical patches, clathrin-dependent endocytosis, and synaptic vesicle recycling), suggesting a cohesive role in maintaining proteome integrity while coordinating cytoskeleton-driven trafficking and endocytosis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071629","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0043622","count":1}]},{"hash":"919144259137073168","title":"Developmental Signaling and Vesicle Trafficking","description":"This cluster centers on signaling pathways involved in development (heart, skeletal, nervous system) and on processes tied to Rho/GTPase signaling and vesicle fusion, including cAMP and dopamine receptor\u2013linked signaling. Together these terms point to a cohesive theme of regulation of development and neurotransmission through signaling and vesicle trafficking mechanisms. Confidence: Medium","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006906","count":3},{"id":"GO:0007191","count":3},{"id":"GO:0043950","count":3}]},{"hash":"1376726145169966222","title":"Lipid and retinoid metabolism","description":"The top terms cluster around lipid biosynthesis and retinoid metabolism: very long-chain fatty acid biosynthesis, mycolic acid biosynthesis, retinol and retinal metabolic processes, and C21-steroid hormone metabolism. There are a few outlier terms (mitotic cell cycle, response to antibiotic), but the dominant signal points to lipid/sterol and retinoid-related metabolism. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0008207","count":2},{"id":"GO:0046677","count":2}]},{"hash":"844034236378630113","title":"Mitochondrial respiration and redox homeostasis","description":"The GO terms are dominated by mitochondrial electron transport (ubiquinol to cytochrome c), proton motive force-driven ATP synthesis, and cell redox homeostasis, which together point to mitochondrial energy production and redox balance as the cluster\u2019s core function. Some peripheral terms (photosynthesis, hydrocarbon degradation) appear noisy or context-dependent but do not override the central mitochondrial respiration signal.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0042776","count":1},{"id":"GO:1902600","count":1}]},{"hash":"1140871388065949806","title":"Nervous system glial development and myelination","description":"The top terms cluster around glial and nervous system development, notably Schwann cell development, myelination in the peripheral nervous system, and astrocyte differentiation, with supporting neural signaling terms like calcium detection and memory. While a few terms are more general (e.g., microautophagy, cardiac hypertrophy), the predominant pattern points to glial differentiation and neural maturation. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:0007613","count":3},{"id":"GO:0007114","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0014898","count":3}]},{"hash":"326635401473615425","title":"Autophagy and Vacuolar Targeting","description":"The dominant GO terms point to autophagy-related processes, including mitophagy (autophagy of mitochondrion) and cytoplasm-to-vacuole targeting (Cvt) pathways, suggesting a theme of autophagic/vacuolar trafficking. Additional terms like protein neddylation and urmylation may reflect regulatory post-translational modifications linked to these pathways, while some terms (e.g., amygdala development, vitamin/cofactor biosynthesis) appear incidental. Overall, autophagy-associated trafficking best explains the cluster.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":3},{"id":"GO:0061504","count":2},{"id":"GO:0006777","count":2},{"id":"GO:0018192","count":2},{"id":"GO:0032258","count":2}]},{"hash":"905826775148408666","title":"Unknown","description":"The GO terms are diverse, including positive regulation of myelination, phagocytosis, and multiple transcription-related processes across RNA polymerases I/II/III, as well as ribosome biogenesis. With only five proteins and a single edge, there is no clear shared function or pathway tying these terms together; the terms span neural development, immune clearance, and core gene expression machinery, suggesting a heterogeneous cluster rather than a coherent biological theme.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031643","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0006366","count":1},{"id":"GO:0006369","count":1},{"id":"GO:0070893","count":1}]},{"hash":"2053096541156156788","title":"Developmental morphogenesis and cell adhesion","description":"The GO terms point to tissue and organ formation processes across multiple systems: metanephros morphogenesis, fungiform papilla formation, CNS vasculogenesis, heart-rate regulation via cardiac conduction, and cell migration. Calcium-dependent cell-cell adhesion and regulation of microtubule dynamics support cell movements and structural remodeling during development, while proton transport and chromatin remodeling reflect broader cellular processes that accompany morphogenesis. Together, these terms suggest a developmental/morphogenetic theme rather than a single, tight function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0032467","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0061198","count":2},{"id":"GO:0003338","count":2}]},{"hash":"884937215323988378","title":"Neural development and synapse formation","description":"The top GO terms are dominated by neural-related processes: embryonic neural development, dendrite development, excitatory postsynaptic potential, proprioception, and tubulin complex assembly, all pointing to neuronal development and synaptic maturation. While there are a couple terms mentioning respiration and transcription regulation, the strongest signals describe neural growth and synaptic signaling, suggesting this cluster represents proteins involved in neural development and synaptic function rather than a non-neural process.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0016358","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007021","count":2}]},{"hash":"211811671355734478","title":"Cardiac electrophysiology and calcium signaling","description":"The GO terms show emphasis on heart development and heart rate regulation, atrial depolarization, calcium transport and calcium-dependent processes, suggesting a cluster of proteins involved in cardiac excitation-contraction coupling and calcium signaling; a few terms (GABA secretion, pain sensing, T cell cytokine regulation) may be peripheral or noisy connections.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002724","count":2},{"id":"GO:0003031","count":2},{"id":"GO:0003220","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0050968","count":2}]},{"hash":"2004779137150755562","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms show clear enrichment for ubiquitination and ubiquitin-dependent degradation (ERAD pathway, ubiquitin-dependent protein catabolic process). Although there are a few outlier terms related to peroxisome import, transcription regulation, and apoptosis, the central theme across the cluster is ubiquitin-mediated proteolysis and protein turnover, suggesting these proteins function together in the ubiquitin-proteasome system.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0016558","count":2},{"id":"GO:0034244","count":2},{"id":"GO:0021685","count":2}]},{"hash":"2070795165517261830","title":"Ubiquitin-Mediated Innate Stress Response","description":"These proteins share GO terms emphasizing ubiquitination (K11-linked) and innate immune response, plus cellular stress signals (cadmium, UV-A). Although a few terms about protein oligomerization and cilium assembly are present, the dominant theme points to ubiquitin-dependent regulation of innate stress/immune signaling.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0051348","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0071276","count":4}]},{"hash":"2208716950713031057","title":"Ubiquitin-dependent regulation of cell cycle and apoptosis","description":"This cluster is dominated by ubiquitination-related terms (polyubiquitination, ubiquitin-dependent proteolysis, K6-linked ubiquitination) and links to cell cycle control, apoptosis/necroptosis, and TNF signaling, indicating a cohesive role in ubiquitin-mediated regulation of cell fate and protein turnover, with some chromatin regulation aspects.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0071157","count":2},{"id":"GO:1903721","count":2},{"id":"GO:0070512","count":2}]},{"hash":"53054224987718995","title":"Unknown","description":"The top GO terms span diverse developmental processes across different species (neuron differentiation, plant ovule morphogenesis, cardiac muscle differentiation) plus adhesion and cytoskeletal activities, with no single shared function tying them together. There are no edges among proteins, and the terms do not suggest a cohesive pathway, so a meaningful label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021527","count":4},{"id":"GO:0048482","count":4},{"id":"GO:0055011","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0035849","count":4}]},{"hash":"1520145025597578007","title":"Multi-linkage deubiquitinases","description":"The top GO terms are dominated by deubiquitination across multiple ubiquitin linkages (K29, K6, K11, K48), suggesting the cluster centers on proteins involved in removing ubiquitin from substrates with broad linkage specificity. Although there are other processes listed (transcription, development), the strongest signal is multi-linkage deubiquitination activity, indicating a coherent theme around DUBs with diverse linkage preferences.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035523","count":3},{"id":"GO:0044313","count":3},{"id":"GO:0035871","count":3},{"id":"GO:0071108","count":3}]},{"hash":"436776142891951049","title":"Neuronal signaling and vesicle trafficking","description":"The top terms point to neural communication (dopamine receptor signaling, dendritic spine morphogenesis, neuromuscular balance) and to intracellular trafficking/lysosome-related processes (Cvt autophagy pathway targeting, lysosomal membrane organization), suggesting a cluster of proteins involved in synaptic signaling intertwined with vesicle trafficking and autophagy. Some terms are obsolete or broad, but the overall theme is coherent around neural signal transduction and vesicle/lysosome dynamics.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":4},{"id":"GO:0032258","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0060161","count":3},{"id":"GO:0050885","count":3}]},{"hash":"1702871884146005886","title":"Actin-Driven Morphogenesis and Cell Migration","description":"The terms center on actin dynamics (actin filament branching, Rac signaling, adherens junctions) and processes like hemocyte migration and trabecula morphogenesis, indicating cytoskeleton remodeling guiding tissue formation and cell movement. Immune signaling terms (mast cell degranulation, T cell activation) may be connected via cytoskeletal roles in immune responses, supporting a cohesive theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090135","count":5},{"id":"GO:0061383","count":5},{"id":"GO:0035099","count":5},{"id":"GO:0048532","count":5},{"id":"GO:0032258","count":5}]},{"hash":"1380504034913419607","title":"Ribosome biogenesis and mitochondrial translation","description":"The top GO terms cluster around translation and ribosome assembly, including mitochondrial translation, selenocysteine incorporation, tRNA modification, ribosomal subunit export, and ribosome biogenesis, which together point to the protein synthesis machinery. Some RNA-processing terms appear as peripheral associations, but the dominant theme is translation-related functions. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001514","count":1},{"id":"GO:0070125","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0003009","count":1}]},{"hash":"1250569819116067131","title":"Neuronal Development and Synaptic Vesicle Exocytosis","description":"The dominant GO terms point to neuronal development and synaptic signaling, especially presynaptic vesicle exocytosis and calcium-channel\u2013dependent vesicle fusion, suggesting roles in neuronal maturation and neurotransmitter release; a few terms (IL-1 signaling, tRNA export) are less central and may reflect broader regulatory roles.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0016477","count":2},{"id":"GO:0070498","count":2},{"id":"GO:0032237","count":2},{"id":"GO:0006906","count":2}]},{"hash":"2129140016504930393","title":"Ubiquitin-dependent regulation of transcription and cell cycle","description":"This cluster centers on ubiquitination processes (polyubiquitination, ubiquitin-dependent proteolysis, K6-linked ubiquitination) and regulatory outcomes affecting transcription (negative regulation of RNA polymerase II), apoptosis, and cell-cycle control, with links to NF-kappaB signaling. The shared theme is ubiquitin-mediated regulation of transcription and cell-cycle processes, plus related signaling, making a cohesive, specific label appropriate.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0085020","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0043066","count":2}]},{"hash":"254080009609500592","title":"B cell activation and phagocytic immune response","description":"This cluster centers on both innate (phagocytosis, complement activation) and adaptive (B cell receptor signaling, positive regulation of B cell activation) immune processes, suggesting proteins involved in immune recognition and phagocytic clearance with B cell\u2013mediated activation.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0050871","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0006910","count":2}]},{"hash":"2015560718697460376","title":"ER-to-Golgi transport and COPI vesicles","description":"This cluster is best described by the early secretory pathway: multiple GO terms point to ER-to-Golgi vesicle transport, COPI coating/budding, Golgi ribbon formation, and regulation of protein exit from the ER (with ER retention in lumen also aligning). A few development-related terms appear as outliers and do not define the main theme. Confidence: High.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0048042","count":1},{"id":"GO:0048205","count":1},{"id":"GO:0070863","count":1}]},{"hash":"2012871362191679075","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms are dominated by ubiquitin-related processes (K11-, K6-, K48-linked ubiquitination, ubiquitin-dependent protein catabolic process, autoubiquitination) and histone catabolic activity, indicating a cluster of proteins involved in tagging substrates for degradation and regulating protein turnover, with some links to TNF signaling and necroptosis. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0036205","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0070936","count":3}]},{"hash":"1518683553125442383","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0001782","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0007014","count":1}]},{"hash":"763811902097871231","title":"Mitochondrial apoptosis in spermatogenesis","description":"The top GO terms point to mitochondrial-driven apoptosis (apoptotic mitochondrial changes, apoptotic process, positive regulation of release of cytochrome c from mitochondria) along with male reproductive development (spermatogenesis, male gonad development). This suggests a cohesive theme of mitochondria-mediated cell death within the testis during sperm development, despite a few broader terms present that are less central. Overall, the cluster appears to reflect apoptosis-related functions associated with spermatogenesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0090200","count":1}]},{"hash":"394870399566940757","title":"Vesicle trafficking and exocytosis regulation","description":"The top GO terms cluster around regulated vesicle transport, sorting, and exocytosis (intracellular transport, multivesicular body sorting, vesicle fusion, and exocytosis), with related processes like spontaneous neurotransmitter release, dendrite extension, and pigment granule dispersal. This suggests a coherent theme of proteins coordinating vesicle trafficking and secretory pathways, including neuronal/synaptic contexts and endosomal sorting. Overall, the cluster represents regulated vesicle trafficking and exocytosis mechanisms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046676","count":2},{"id":"GO:0071985","count":2},{"id":"GO:0031340","count":2},{"id":"GO:1903861","count":2},{"id":"GO:0006886","count":2}]},{"hash":"1888079245612251696","title":"Tissue Development and Differentiation","description":"The top GO terms cluster around development and differentiation across multiple tissues (lens, skeletal system, gonads, fat, neurons) plus general multicellular development and proteolysis. This pattern suggests the proteins participate in broad developmental differentiation programs rather than a single specific pathway. Because the set includes diverse tissue-specific differentiation terms, the label \u201cTissue Development and Differentiation\u201d best captures the shared function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0001501","count":2}]},{"hash":"928658096088520365","title":"Microtubule dynamics and neuronal transport","description":"The prominent GO terms point to microtubule regulation and dynamics (meiotic spindle orientation, spindle midzone assembly, plus-end and minus-end depolymerization, regulation of microtubule-based processes, nuclear migration) alongside neuron-related transport and structural context (anterograde dendritic transport of neurotransmitter receptor complexes and cerebellar granular layer organization). This suggests a cohesive theme around microtubule remodeling and transport in both cell division\u2013related and neuronal contexts, making \u201cMicrotubule dynamics and neuronal transport\u201d an informative label.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051296","count":5},{"id":"GO:0060404","count":5},{"id":"GO:0098971","count":5},{"id":"GO:0021685","count":5},{"id":"GO:0051255","count":5}]},{"hash":"2037815667690447192","title":"DNA replication and cell cycle regulation","description":"This cluster\u2019s top GO terms cluster around DNA replication initiation, pre-replicative complex assembly, DNA replication, and associated cell cycle processes and checkpoints, suggesting proteins coordinated in initiating and regulating DNA replication and cell cycle progression.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0000727","count":2},{"id":"GO:0032508","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0006267","count":2}]},{"hash":"1377137930357821080","title":"Unknown","description":"The terms cover neural learning, muscle function, organ morphogenesis, and signaling without a cohesive single function, making a single representative label untenable.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008355","count":1},{"id":"GO:0007426","count":1},{"id":"GO:1990255","count":1},{"id":"GO:0045010","count":1},{"id":"GO:0003009","count":1}]},{"hash":"418712600776238878","title":"Potassium ion transport and membrane potential regulation","description":"The highest-enrichment GO terms are potassium ion transport, stabilization of membrane potential, and intracellular potassium ion homeostasis, with additional signals for potassium import/export. This points to a coherent functional module centered on maintaining intracellular potassium balance and the electrical gradient, a hallmark of excitable cells such as neurons, consistent with dendrite morphogenesis signals being a secondary aspect. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0030322","count":3},{"id":"GO:0030007","count":3},{"id":"GO:0043619","count":3},{"id":"GO:0006351","count":3}]},{"hash":"114743578166470427","title":"Neural GPCR and vision signaling","description":"This cluster centers on neural signaling and light-detection pathways. The top terms include regulation of membrane potential, opsin-mediated signaling, visual learning, and serotonin GPCR-PLC signaling, all pointing to neuronal communication and vision-related processes. Some peripheral terms relate to broader neuromodulatory contexts (astrocyte chemotaxis, blood pressure, IL-8 production), but the core theme is neural signaling with vision-related pathways.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0008542","count":2},{"id":"GO:0035106","count":2},{"id":"GO:0007190","count":2},{"id":"GO:2000484","count":2}]},{"hash":"2297503772900224640","title":"GPCR Signaling and Sensory Pathways","description":"This cluster centers on G-protein coupled receptor signaling, including adenylate cyclase activation, PLC-activating serotonin receptor signaling, and opsin-mediated signaling, with terms tied to visual learning and sensory transduction. Additional terms like eosinophil chemotaxis and blood pressure regulation can be downstream effects of GPCR signaling, supporting a cohesive theme of GPCR-mediated signaling and related sensory processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":5},{"id":"GO:0035106","count":5},{"id":"GO:0007190","count":5},{"id":"GO:2000484","count":5},{"id":"GO:0007208","count":5}]},{"hash":"1257798044862131829","title":"Sterol and isoprenoid biosynthesis cluster","description":"The GO terms converge on sterol and isoprenoid production: acetyl-CoA metabolic process, mevalonate pathway, farnesyl diphosphate biosynthesis, ergosterol and cholesterol biosynthesis. This points to a coherent pathway module for isoprenoid/sterol biosynthesis with acetyl-CoA as a precursor, with electron transport linked to energy metabolism accompanying biosynthesis. Some peripheral terms (antibiotic biosynthetic process) may reflect broader secondary metabolism but do not override the dominant sterol/isoprenoid theme.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006084","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0010142","count":2}]},{"hash":"261178495835339178","title":"Ubiquitin-Dependent Proteolysis (ERAD/SCF)","description":"The GO terms are dominated by ubiquitin-related degradation pathways, including polyubiquitination and SCF- and ERAD-mediated proteolysis, indicating a cluster focused on ubiquitin-proteasome\u2013mediated protein turnover. Some immunity and cell cycle terms appear but do not override the core proteolysis theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0008283","count":3}]},{"hash":"1055692641889955358","title":"Gastrulation and Embryonic Morphogenesis","description":"The cluster\u2019s top GO terms cluster around gastrulation processes (cell migration, adhesion), basement membrane organization, and vasculature development, which together point to embryonic morphogenesis and tissue remodeling. While other terms touch signaling or ribosome export, the strongest signal is developmental remodeling during early development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001944","count":2},{"id":"GO:0007193","count":2},{"id":"GO:0071711","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0090038","count":2}]},{"hash":"792984038707029920","title":"Biosynthesis and RNA/Protein Modifications","description":"The top GO terms point to multiple biosynthetic processes (sterol, antibiotic, biotin, polyamine biosynthesis) together with various molecular modification processes (rRNA modification, tRNA wobble uridine modification, N-terminal peptidyl-alanine trimethylation). This pattern suggests a functional cluster focused on building biomolecules and modifying them after synthesis, with xenobiotic response and nodulation as broader contextual signals. Hence, a label emphasizing biosynthesis and modifications fits best.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016126","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0018012","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0016049","count":3}]},{"hash":"839836772079692340","title":"Embryonic and reproductive development regulation","description":"The GO terms cluster around differentiation and development across multiple tissues (fat cell, myoblasts, hindlimb morphogenesis, placenta, gonads) with additional regulatory processes (circadian rhythm, lysosomal enzyme secretion). This suggests a broad theme of developmental regulation rather than a single cohesive pathway, hence the label.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":4},{"id":"GO:0070858","count":4},{"id":"GO:0044320","count":4},{"id":"GO:0001553","count":4},{"id":"GO:0001893","count":4}]},{"hash":"1962622922288465015","title":"Multicellular development and organogenesis","description":"Most Top Terms are developmental processes across tissues (brain, heart, gonad, skeleton, neuron migration, organ induction, multicellular development). The shared theme is embryonic/organ formation rather than a single specific pathway, so the cluster is best described as Multicellular development and organogenesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1544690871974983304","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0021957","count":1},{"id":"GO:0061373","count":1}]},{"hash":"1686302345641590069","title":"Ubiquitin-Proteasome-Mediated Cell Cycle Regulation","description":"This cluster centers on ubiquitin-related processes: K11-linked ubiquitination, cytoplasmic protein quality control by the ubiquitin-proteasome system, and cell-cycle-related events like exit from mitosis and spindle checkpoint deactivation, with ISG15 conjugation as a related ubiquitin-like modifier. A few immune signaling terms appear, but the dominant theme is ubiquitin/ISG15-driven proteostasis linked to cell cycle control.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0030466","count":4},{"id":"GO:0071629","count":4},{"id":"GO:0010458","count":4},{"id":"GO:1902426","count":4}]},{"hash":"221200954322121613","title":"Embryonic organogenesis","description":"These proteins show GO terms tied to development of multiple embryonic structures\u2014retinal ganglion cell axon guidance, rhombomere 3 formation, somite specification, limb and inner ear morphogenesis, and heart development (Purkinje myocytes, AV node). The common thread is broad embryonic morphogenesis and organogenesis across tissues, rather than a single, cohesive pathway, suggesting a role in early tissue formation across several organs.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":4},{"id":"GO:0021569","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0003168","count":4},{"id":"GO:0060928","count":4}]},{"hash":"1905451670502254870","title":"Unknown","description":"The top GO terms are highly diverse and cover pattern formation, heart development, immune regulation, transcription factor activity, wound detection, DNA replication, estrogen signaling, ovarian follicle growth, EMT regulation, and mesangial cell development. There is no single coherent function or pathway uniting these terms, so a concise, representative label cannot be determined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":3},{"id":"GO:0003146","count":2},{"id":"GO:0045085","count":2},{"id":"GO:0032792","count":2},{"id":"GO:0014822","count":2}]},{"hash":"255867965812029159","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0070979","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0006295","count":1}]},{"hash":"1048283987589705328","title":"Chromatin Regulation and Histone Modification","description":"The terms point primarily to regulation of chromatin state and histone marks (negative regulation of heterochromatin formation, histone deacetylation, histone methylation states, rDNA heterochromatin), with a minor signal for autophagy regulation. This suggests a cohesive theme around epigenetic regulation of chromatin rather than a single catalytic process, hence a label focusing on chromatin regulation and histone modification.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031452","count":2},{"id":"GO:0001207","count":2},{"id":"GO:0016239","count":1},{"id":"GO:2000873","count":1},{"id":"GO:0036124","count":1}]},{"hash":"58752368776529547","title":"Chromatin assembly and transcription regulation","description":"The top GO terms are dominated by nuclear chromatin-related processes (nucleosome assembly, protein localization to chromatin, transcription elongation regulation) with a historical histone modification term, suggesting these proteins cluster around chromatin dynamics and transcription control. While a few terms touch ribosome export or immune-related functions, the strongest signal points to chromatin organization and transcription regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0033082","count":1},{"id":"GO:0032298","count":1},{"id":"GO:0036333","count":1},{"id":"GO:0071440","count":1}]},{"hash":"503698384269373772","title":"Ribosome biogenesis and rRNA maturation","description":"The dominant GO terms point to ribosome-related processes: maturation of SSU/LSU/5.8S rRNA and ribosomal large subunit biogenesis, indicating a shared function in ribosome assembly and rRNA processing. Other terms are broad and less informative for the core function, but the ribosome-associated terms clearly tie the cluster together.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0000462","count":3}]},{"hash":"1891079485631061294","title":"Unknown","description":"The GO terms span muscle function and calcium signaling, eye development, memory, and immune/metabolic processes, with no clear unifying theme among the four proteins. Because the functions appear disparate and no dominant shared pathway emerges, a precise, representative label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006816","count":2},{"id":"GO:0051764","count":1},{"id":"GO:0010842","count":1},{"id":"GO:0086004","count":1},{"id":"GO:0042694","count":1}]},{"hash":"750712109115695121","title":"Diverse Metabolic Biosynthesis","description":"The GO terms point to a range of biosynthetic and metabolic processes, including cholesterol/ergosterol biosynthesis, amino acid (L-cysteine) and hydrogen sulfide biosynthesis, nitrate catabolism, and organofluorine metabolism, with a few unrelated or obsolete terms (e.g., IL-6 production). There isn\u2019t a single cohesive pathway linking all terms, so the cluster appears to reflect broad metabolic biosynthesis rather than a specific function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":3},{"id":"GO:0070814","count":3},{"id":"GO:0043602","count":3},{"id":"GO:0006695","count":3},{"id":"GO:0072604","count":3}]},{"hash":"1553918134258980688","title":"Oxidative Stress Response Proteins","description":"The cluster predominantly features GO terms tied to redox biology: oxidation-reduction processes, removal of superoxide radicals, and reactive oxygen species responses (with selenium ion association pointing to antioxidant enzymes). While some terms are unrelated or obsolete, the redox/ROS theme is the strongest signal, supporting a label for oxidative stress and redox balance functions.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0010447","count":1},{"id":"GO:0001302","count":1},{"id":"GO:0071291","count":1},{"id":"GO:0003069","count":1}]},{"hash":"608167938269923911","title":"RNA splicing and translation regulation","description":"This cluster is dominated by post-transcriptional RNA processing terms: mRNA splice site recognition, alternative splicing via the spliceosome, and regulation of splicing, as well as mRNA export and stability in stress response, plus translation-related terms such as IRES-dependent viral initiation and miRNA-mediated silencing. The recurring theme is RNA processing and control of gene expression at the mRNA level, including interactions with viral translation. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0000381","count":4},{"id":"GO:0010610","count":4},{"id":"GO:0035278","count":4}]},{"hash":"1425212686226049090","title":"Innate Immune Activation and Oxidative Burst","description":"This cluster centers on innate immune response and inflammation, highlighted by terms for innate immunity, inflammatory response, TLR2 signaling, and positive regulation of NADPH oxidase activity leading to ROS production, i.e., an oxidative burst defense module. A few terms (e.g., glucose stimulus, gamma radiation response) appear as minor outliers, but the dominant theme is immune activation and ROS-mediated defense.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032755","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0071333","count":1},{"id":"GO:1904044","count":1},{"id":"GO:0050665","count":1}]},{"hash":"986041381812972546","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0045948","count":2},{"id":"GO:0048024","count":2},{"id":"GO:0046833","count":2},{"id":"GO:0045944","count":2}]},{"hash":"258527440894872673","title":"Unknown","description":"These terms split into two largely unrelated themes: cell division (kinetochore assembly, mitotic cell cycle, cell division) and mitochondrial energy metabolism/organellar turnover (mitochondrial electron transport, ATP synthesis, autophagy of mitochondrion, transport, plus a photosynthesis term). There is no single cohesive function tying all terms together, so a concise label isn\u2019t apparent.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051382","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0006810","count":1}]},{"hash":"975346990927623802","title":"Skin Development and Proliferation Signaling","description":"The top GO terms center on skin and multicellular development, with clear signals for cell proliferation and kinase-mediated signaling (positive regulation of serine/threonine kinase activity, autophosphorylation, and GTPase activity). This pattern suggests a small module involved in epidermal development and growth signaling, despite some additional terms (hypoxia response, mRNA transport) that may reflect broader cellular context. Overall, a coherent theme of skin development linked to proliferative signaling fits the data best.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0008284","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0051260","count":2}]},{"hash":"1769481785554867330","title":"Immune Response and Antigen Presentation","description":"This cluster is dominated by GO terms related to both innate and adaptive immunity, including innate immune response, antigen processing/presentation via MHC class Ib, T cell cytokine production and cytotoxicity, humoral immune response, and defense against Gram-negative bacteria, plus a response to lipopolysaccharide. While a couple of terms (iron transport, polysaccharide binding) are more general, the overall pattern points to immune defense and antigen presentation as the core theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002726","count":3},{"id":"GO:0033216","count":3},{"id":"GO:0002506","count":3},{"id":"GO:0001916","count":3},{"id":"GO:0050829","count":3}]},{"hash":"825273871036196886","title":"Neuronal mitochondrial respiration","description":"The top GO terms are dominated by mitochondrial electron transport and energy production (proton transport, respiratory chain, aerobic respiration, complex IV assembly), with brain-region terms likely reflecting neuronal expression context; overall the cluster centers on mitochondrial energy production in neurons.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0021854","count":2},{"id":"GO:0042774","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0021794","count":1}]},{"hash":"617374535887053887","title":"Ribosome Biogenesis and RNA Modification","description":"The top GO terms cluster around ribosome production and RNA modification, including ribosomal small subunit assembly and pseudouridine synthesis for rRNA and tRNA. These points strongly indicate a shared function in ribosome biogenesis and RNA modification. A few plant-development or stress-related terms appear as secondary associations, and one term (hemidesmosome assembly) may be an annotation artifact, not central to the cluster. Overall, the ribosome/RNA-processing theme best explains the set. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031581","count":2},{"id":"GO:0006407","count":2},{"id":"GO:2000032","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0034198","count":2}]},{"hash":"1871751411000702745","title":"Ubiquitin-dependent antiviral defense","description":"This cluster centers on ubiquitin-dependent proteolysis and post-translational modifications (ubiquitination, K11-linked ubiquitination, sumoylation) together with innate immune and antiviral responses (innate immune response, defense against virus, suppression of viral release). A few peripheral terms (mitotic cell cycle, peroxisomal protein import, B cell homeostasis) are less connected, but the dominant theme links ubiquitin/SUMO pathways to antiviral defense.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0070979","count":2}]},{"hash":"293567749143692286","title":"Ribosome Biogenesis and Translation","description":"The proteins are linked by GO terms centered on translation and ribosome assembly, including cytosolic translation, ribosomal subunit assembly, mitochondrial translation, and rRNA processing, plus translational termination. This pattern indicates involvement in the core protein synthesis machinery and ribosome maturation, with potential reflection of translation-inhibiting antibiotic responses. Overall, the cluster represents ribosome biogenesis and protein synthesis processes.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042255","count":1},{"id":"GO:0000448","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0000027","count":1}]},{"hash":"168384715914060389","title":"Mitotic regulation & MAPK signaling","description":"The cluster\u2019s top GO terms cluster around regulation of MAPK/ERK signaling (negative regulation) and core cell cycle/mitotic functions, including DNA replication, centrosome cycle, and kinetochore localization. While there are some development-related terms present, the strongest coherence is in mitotic control and signaling modulation, suggesting these proteins work together to regulate cell division and associated signaling pathways.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0000200","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0034501","count":2}]},{"hash":"1359934319254429687","title":"Unknown","description":"The GO terms for this small cluster are scattered across redox, metabolic, signaling, and immune processes, with several entries marked obsolete, and no clear, cohesive function unites the proteins. While there are hints of stress-response and signaling (oxidation/reduction, hydrogen peroxide response, autophosphorylation), the lack of a consistent theme makes a specific label unreliable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0030819","count":1},{"id":"GO:0051259","count":1},{"id":"GO:0046777","count":1},{"id":"GO:0006228","count":1}]},{"hash":"1381024174235266775","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":1},{"id":"GO:0006283","count":1},{"id":"GO:0006386","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0006367","count":1}]},{"hash":"1499976452254725544","title":"Lipid Metabolism and Detoxification","description":"Top GO terms cluster around triglyceride metabolism, fatty acid omega-oxidation, and xenobiotic detoxification, with additional signals for steroid-related biosynthesis and oxylipin production. This points to a cohesive theme of lipid-derived metabolite processing and detox pathways, even though some terms span plant and animal contexts. The overall pattern suggests a lipid- and hormone-associated metabolic module rather than unrelated processes.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0036378","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0032342","count":2}]},{"hash":"1989973358309055835","title":"Actin Cytoskeleton Organization and Polarity","description":"This cluster is dominated by GO terms pointing to actin dynamics and spatial organization: Arp2/3-mediated actin nucleation, cortical actin assembly, postsynaptic actin remodeling, and mitotic actomyosin contractile ring assembly, all of which tie to cell shape, polarity, phagocytosis, and cytokinesis. Additional terms about cell polarity and vacuole inheritance reinforce the theme of actin-driven cellular organization. A few chromatin-related terms appear as minor noise, but the core signal centers on actin cytoskeleton regulation.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":4},{"id":"GO:0043981","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0006909","count":4},{"id":"GO:0010628","count":4}]},{"hash":"2045548418931510137","title":"Unknown","description":"The top GO terms are extremely diverse (mitochondrion inheritance, sphingolipid and ergosterol metabolism, unsaturated fatty acid biosynthesis, nitric oxide production, skin differentiation, nitrate assimilation, CNS myelin maintenance), with no clear shared biological theme and no edges connecting the proteins, so there is no coherent label that represents the cluster\u2019s function. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":4},{"id":"GO:0006675","count":4},{"id":"GO:0006636","count":4},{"id":"GO:0032443","count":4},{"id":"GO:0006809","count":4}]},{"hash":"1746256337137541184","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034244","count":2},{"id":"GO:0035372","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0061098","count":2},{"id":"GO:0001782","count":1}]},{"hash":"515558217765410898","title":"Alpha-glucan and trehalose metabolism","description":"This cluster\u2019s top GO terms center on metabolism and turnover of glucose polymers, especially alpha-glucans like glycogen and trehalose, including biosynthetic and catabolic processes as well as related maltose/polysaccharide digestion. The repeated emphasis on trehalose, glycogen, and alpha-glucan pathways suggests a cohesive role in glucose-polymer metabolism.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051692","count":3},{"id":"GO:0005993","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0005992","count":3},{"id":"GO:0005985","count":3}]},{"hash":"2113643444895641743","title":"Neural development and brain signaling","description":"The proteins seem tied to neural development, as reflected by CNS neuron development, cerebellum development, and orbitofrontal cortex development (with lens development also appearing, suggesting ocular development). The presence of caveolin-mediated endocytosis and signaling terms (e.g., IL-1 signaling) indicates roles in membrane trafficking and receptor signaling that support developmental processes. Overall, the cluster most plausibly represents neural (and ocular) development and related signaling pathways.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":4},{"id":"GO:0002088","count":4},{"id":"GO:0021954","count":4},{"id":"GO:0033160","count":4},{"id":"GO:0016477","count":4}]},{"hash":"1809107674099737858","title":"Calcium Handling and Membrane Potential","description":"GO terms point to calcium ion movement and storage (calcium import into sarcoplasmic reticulum, Golgi calcium homeostasis, calcium sequestration) as well as general ion transport that stabilizes membrane potential (sodium/potassium export). Together these terms suggest a cluster centered on calcium signaling and ionic homeostasis that maintains cell excitability.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990036","count":4},{"id":"GO:2000481","count":4},{"id":"GO:0030322","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0051208","count":4}]},{"hash":"760102797367392591","title":"Signaling and Immune Response Regulators","description":"The terms point to multiple signaling pathways (NF-kappaB, STAT, erythropoietin, FGF signaling) and innate immune processes, with additional endocrine and developmental signaling (vitamin D metabolism, parathyroid hormone secretion, melanocyte migration). The cluster seems to reflect a broad set of signaling/immune-related functions rather than a single cohesive pathway, so the label captures the general theme of signaling and immune regulation. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0035607","count":2},{"id":"GO:0002318","count":2},{"id":"GO:0042523","count":2},{"id":"GO:0038162","count":2}]},{"hash":"693850997399723032","title":"Amino acid metabolism and metabolic signaling","description":"The terms center on amino acid catabolic processes (serine, homocysteine) and regulation of energy-related pathways (gluconeogenesis, GTP biosynthesis), plus hydrogen sulfide biosynthesis, all indicating metabolic processing and signaling. Other terms reflect nutrient stress and transport but do not override the metabolic theme. Therefore the label captures the cluster's core function as amino acid\u2013 and energy-metabolism\u2013focused with signaling connections.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006565","count":4},{"id":"GO:0045722","count":4},{"id":"GO:0070814","count":4},{"id":"GO:0043418","count":4}]},{"hash":"645854123684479856","title":"Iron uptake and detoxification","description":"Based on the GO terms, the cluster centers on iron metabolism: iron ion transport and siderophore-iron import indicate uptake, along with detoxification of iron ions and intracellular sequestration. Although some terms are obsolete or broad stress-related, the recurring theme is iron acquisition and homeostasis, with potential links to related metabolic regulation (e.g., succinate dehydrogenase/TCA connections).","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904234","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0097286","count":2},{"id":"GO:0033214","count":2},{"id":"GO:0006880","count":2}]},{"hash":"1111034423868766434","title":"Retinal development and brain layering","description":"This cluster\u2019s top GO terms center on neural development, especially retinal morphogenesis and retina layer formation, plus brain region development such as cerebral cortex layering and cerebellum formation, with amacrine cell differentiation also represented. Supporting terms related to cytoskeletal regulation and exocytosis reflect cellular processes during neural tissue organization. Overall, the proteins seem tied to neural tissue patterning and layered brain/retina formation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060059","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0010842","count":1}]},{"hash":"856650263956655284","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0035640","count":2},{"id":"GO:0071441","count":2},{"id":"GO:0006310","count":2}]},{"hash":"1125920989518233095","title":"SRP-Mediated Protein Targeting and UPR","description":"The dominant GO terms point to membrane targeting of nascent proteins via SRP-dependent cotranslational translocation and related membrane targeting processes, complemented by cellular response to unfolded protein and unfolded protein response. This suggests a cohesive cluster around membrane protein targeting with ER-associated quality control, with other terms likely reflecting related stress responses or noise. ","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":2},{"id":"GO:0006880","count":2},{"id":"GO:1902037","count":2},{"id":"GO:0070880","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1240133795597023389","title":"Fungal sterol and lipid biosynthesis","description":"The cluster\u2019s proteins cluster around lipid and sterol metabolic pathways: ergosterol biosynthesis, cholesterol biosynthesis via lathosterol, ether lipid metabolism, and fatty acid biosynthesis, with supporting sphingolipid metabolism (MIPC) and sterol oxidation steps. This strongly points to a core theme of sterol/lipid biosynthesis in fungi, with a few unrelated terms (B cell chemotaxis, sebaceous gland differentiation, CNS myelin maintenance) appearing as peripheral annotations. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006675","count":2},{"id":"GO:0033490","count":2},{"id":"GO:0046485","count":2},{"id":"GO:0006696","count":2},{"id":"GO:0035754","count":2}]},{"hash":"1647032061428975009","title":"Immune Regulation and Inflammatory Control","description":"The top GO terms cluster around suppression and control of immune signaling and inflammatory processes (negative regulation of T cell proliferation, IL-5/IL-13 production, and type II IFN), along with broader regulatory activities like transcriptional control and responses linked to inflammation. While there are a few non-immune terms present, the dominant theme ties to immune regulation and inflammatory response.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042130","count":3},{"id":"GO:0034021","count":3},{"id":"GO:0050727","count":3},{"id":"GO:0032714","count":3},{"id":"GO:0043488","count":3}]},{"hash":"572804398447018359","title":"Lysosome and Autophagy Regulation","description":"The top GO terms cluster around lysosomal function and autophagy (lysosome localization, microautophagy, vacuolar acidification) and TOR signaling regulation, suggesting a shared theme of lysosome/ autophagy regulation. Peripheral terms about podosome assembly and B cell proliferation may reflect broader vesicle trafficking or signaling contexts but do not override the primary lysosome/autophagy signal.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0030890","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0032418","count":1}]},{"hash":"30862732798608844","title":"ER-Golgi trafficking and growth signaling","description":"The top terms emphasize COPII-coated vesicle budding and ER-Golgi transport (anterior and retrograde), indicating an intracellular trafficking module. Coupled with positive regulation of TORC1 signaling, mitotic processes, and multicellular growth, the cluster appears to link vesicle transport with growth and development signals, potentially coordinating membrane biosynthesis with proliferation. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904263","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0090114","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0000278","count":4}]},{"hash":"387809147159740971","title":"Dopamine/Adrenergic GPCR Signaling in Development","description":"Most terms point to GPCR signaling pathways triggered by dopamine and adrenergic receptors, engaging downstream cAMP and phospholipase C cascades. The presence of heart and skeletal development terms suggests developmental roles for this signaling module, indicating a dopamine/adrenergic GPCR signaling cluster involved in development.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0010255","count":3},{"id":"GO:0007191","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1223057394156789247","title":"Unknown","description":"The GO terms are diverse, including ubiquitin-related regulation, GTPase activity regulation, TORC1 and glucose signaling, DNA damage response, development, and ribosome maturation. There is no single cohesive function tying all four proteins together, so a specific, representative label cannot be confidently assigned beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0070979","count":2},{"id":"GO:0000463","count":2},{"id":"GO:1904668","count":2},{"id":"GO:0072432","count":2}]},{"hash":"1380425150890442646","title":"Fat Cell Differentiation and Metabolic Regulation","description":"The most represented term is fat cell differentiation, with supporting terms tied to adipose-related signaling such as cellular response to leptin and circadian regulation of metabolism, suggesting this cluster centers on adipogenesis and metabolic hormone signaling. Although a few terms refer to broader developmental processes (luteinization, placenta development), the dominant theme is adipose tissue differentiation and its metabolic regulation, which best explains the GO pattern for these proteins.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0070858","count":1},{"id":"GO:0044320","count":1},{"id":"GO:0001553","count":1},{"id":"GO:0001893","count":1}]},{"hash":"2246757962352809461","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007014","count":2},{"id":"GO:0061158","count":2},{"id":"GO:0048535","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1893944239729272495","title":"Unknown","description":"Top GO terms show a mixed set of neural development (neurogenesis, auditory receptor cell development, synapse organization) and various differentiation pathways (mast cell differentiation, myeloid progenitor differentiation), with no single unifying function across the proteins. Because the terms are heterogeneous and do not converge on a specific biological role, I cannot assign a more precise label. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000187","count":3},{"id":"GO:0060117","count":2},{"id":"GO:1905065","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0048672","count":2}]},{"hash":"764791296685043500","title":"Folate metabolism and dTMP synthesis","description":"These proteins cluster around folate-dependent metabolic processes: dihydrofolate and folic acid metabolism, tetrahydrobiopterin biosynthesis, and dTMP (thymidylate) biosynthesis. The GO terms include response to methotrexate (an antifolate drug) and response to antibiotic, which reinforces the antifolate/nucleotide synthesis connection, while methylation ties into one\u2011carbon metabolism linked to folate pathways. Although a few terms like axon regeneration and NOS regulation appear, the dominant theme is folate\u2011driven nucleotide and cofactor biosynthesis, supporting this label.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031427","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0031103","count":3},{"id":"GO:0046677","count":3}]},{"hash":"200754399449798931","title":"Nervous system and eye development","description":"Based on the enriched terms, the cluster centers on developmental processes of the nervous system and sensory/eye structures (CNS neuron development, cerebellum development, lens development) with supporting signals from cell migration and sensory-related functions. A few terms point to general cellular processes (caveolin-mediated endocytosis, IL-1 signaling) but do not override the dominant neurodevelopmental/eye-development theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0072584","count":2},{"id":"GO:0002088","count":2},{"id":"GO:0021954","count":2}]},{"hash":"538255402914642114","title":"Membrane Ion Export and Calcium Signaling","description":"The top terms point to a membrane-centered theme, with explicit Na+ and K+ ion export across the plasma membrane and calcium-related processes (calcium sequestration, calcium-dependent exocytosis regulation). This suggests a cluster focused on membrane ion transport and calcium signaling, with other terms (serine biosynthesis, arginine/citrulline regulation, pheromone response) appearing peripheral. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":4},{"id":"GO:0051208","count":4},{"id":"GO:0036376","count":4},{"id":"GO:0097623","count":4},{"id":"GO:1900082","count":4}]},{"hash":"904894500182576062","title":"Developmental Regulation and Ubiquitination","description":"This cluster centers on developmental processes such as spinal cord, skin, and multicellular organism development, with ubiquitination-related terms (protein ubiquitination and positive regulation of ubiquitin ligase activity) suggesting regulation of development via ubiquitin pathways; additional terms hint at stress responses but do not define a distinct single function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043588","count":2}]},{"hash":"22757163735897812","title":"Unknown","description":"The GO terms point to diverse signaling processes, including neural learning (visual learning, operant conditioning, opsin signaling) and GPCR/cAMP pathways, plus immune and vascular functions (IL-8 production, eosinophil chemotaxis, blood pressure regulation) and non-neural tissue differentiation (enteric smooth muscle) and astrocyte chemotaxis. They do not converge on a single coherent biological theme for the protein cluster, so Unknown is most appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0035106","count":2},{"id":"GO:0007190","count":2},{"id":"GO:2000484","count":2},{"id":"GO:0007208","count":2}]},{"hash":"1015537261805706902","title":"Unknown","description":"The GO terms are spread across RNA splicing, translation initiation, proteasome storage granule assembly, post-translational modifications, ethanol response, and mitochondrial fission, with no clear single function tying the four proteins together. A cohesive, interpretable label cannot be justified based on the available terms.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0075522","count":2},{"id":"GO:1902906","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0014067","count":2}]},{"hash":"256382046062885672","title":"Lipid biosynthesis and steroid/retinoid metabolism","description":"The proteins cluster around multiple lipid-related processes: very long-chain fatty acid biosynthesis, fatty acid elongation, mycolic acid biosynthesis, sphingolipid biosynthesis, and retinol/retinal metabolism, as well as C21-steroid hormone metabolic processes. This suggests a cohesive theme of lipid metabolism and the processing of lipid-based signaling molecules (steroids and retinoids). Some antibiotic-related terms appear but seem secondary to the core lipid-centric functions. Overall, the cluster is best described as lipid biosynthesis with steroid/retinoid involvement.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0008207","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0042572","count":4}]},{"hash":"116747108771765584","title":"Stress-Responsive Nucleic Acid Turnover","description":"This cluster\u2019s top GO terms are dominated by nucleotide and RNA metabolism and turnover (diadenosine tetraphosphate catabolic process, purine ribonucleotide catabolic process, RNA decay and exonuclease activity, deadenylation-independent decay) along with DNA repair and stress-related responses (cellular response to menadione, apoptotic process). Although a couple of terms (bone development, lipid catabolic) are less connected, the prevailing pattern points to nucleic acid turnover under cellular stress and associated maintenance pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0015967","count":1},{"id":"GO:0009154","count":1},{"id":"GO:0044240","count":1}]},{"hash":"819636545215783250","title":"Neurodevelopment and Lens Formation","description":"The top GO terms cluster around nervous system development (central nervous system neuron development, cerebellum development) and lens development in the eye, suggesting a shared focus on neuro-ocular morphogenesis. Miscellaneous terms like caveolin-mediated endocytosis and cell migration support developmental remodeling, though mitotic cell cycle and DNA replication indicate proliferative phases. Overall, the dominant theme is neurodevelopment with eye lens formation. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0072584","count":2},{"id":"GO:0002088","count":2}]},{"hash":"1652246368103617886","title":"Amino acid biosynthesis and sulfur metabolism","description":"The GO terms cluster around amino acid metabolism, including serine and threonine biosynthesis, tryptophan biosynthesis, and sulfur-related pathways such as transsulfuration and hydrogen sulfide biosynthesis, suggesting a module dedicated to amino acid biosynthesis and sulfur metabolism.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009310","count":1},{"id":"GO:0019295","count":1},{"id":"GO:0018871","count":1},{"id":"GO:0006565","count":1},{"id":"GO:0000162","count":1}]},{"hash":"187381593312279917","title":"Neural development and endocytosis","description":"This cluster shows a cohesive emphasis on nervous system and eye development (CNS neuron development, cerebellum development, lens development) together with membrane trafficking via caveolin-mediated endocytosis, suggesting proteins involved in neurodevelopmental processes that rely on endocytic regulation. While a few terms relate to broader signaling or immune processes, the dominant theme centers on neural/eye development and endocytic transport.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":4},{"id":"GO:0002088","count":4},{"id":"GO:0021954","count":4},{"id":"GO:0033160","count":4},{"id":"GO:0016477","count":4}]},{"hash":"1847322925980688176","title":"Ubiquitin-dependent proteolysis (ERAD)","description":"Most enriched terms are ubiquitin-dependent protein catabolic process and ERAD (including K63-linked ubiquitination). While a few terms touch neural development or innate immunity, the dominant shared function appears to be ubiquitin-tagged protein degradation, especially via ER-associated degradation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0001843","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1571238272761192898","title":"Cell cycle, DNA repair, and proteolysis","description":"The top GO terms point to mitotic processes (cell division, mitotic cell cycle, APC-dependent catabolic process) and chromatin organization, plus DNA repair via homologous recombination. They are complemented by ubiquitin-proteasome pathways (SCF, K11-linked ubiquitination) and ERAD-related degradation, indicating a theme of coordinated cell-cycle progression with proteostasis and DNA damage response. This makes a concise label: cell cycle regulation tied to proteolysis and repair.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0031497","count":3},{"id":"GO:0000724","count":3}]},{"hash":"2159602617968239532","title":"Fatty acid oxidation and carnitine metabolism","description":"The top GO terms point clearly to lipid energy pathways, especially fatty-acyl-CoA biosynthesis and fatty acid beta-oxidation via acyl-CoA dehydrogenase/oxidase, plus carnitine biosynthesis/metabolism. While there are a few outliers (e.g., gluconeogenesis regulation, valine catabolism), the dominant theme is fatty acid oxidation and carnitine-dependent metabolism.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0046949","count":3},{"id":"GO:0018896","count":3},{"id":"GO:0019254","count":3},{"id":"GO:0006574","count":3}]},{"hash":"1418432325707751904","title":"Endocytosis-linked immune signaling","description":"This cluster centers on endocytosis (receptor- and caveolin-mediated) and immune-related processes, including regulation of JNK signaling and both innate and adaptive immune responses, with ubiquitination-related activity. Together, these terms suggest a module where endocytic trafficking intersects with immune signaling and proteostasis. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1799914399697372609","title":"Metabolic Regulation and Stress Response","description":"The GO terms cluster around regulation of core metabolic processes (autophagy, glycolysis, gluconeogenesis, cholesterol biosynthesis) and cellular responses to environmental and proteotoxic stress (ethanol, hydrogen peroxide, caffeine, unfolded protein). This suggests a functional module of proteins coordinating metabolism with stress adaptation, with a minor note that one term is historical/obsolete, and another touches skeletal muscle development, but the dominant theme remains metabolic regulation coupled to stress signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0045722","count":1},{"id":"GO:0035404","count":1},{"id":"GO:0048643","count":1},{"id":"GO:0006695","count":1}]},{"hash":"2187038732395780041","title":"Unknown","description":"The GO terms cover a wide and disparate set of biosynthetic and catabolic processes (strigolactone metabolism, antibiotic biosynthesis, biotin biosynthesis, various catabolic pathways) with no shared functional theme or interaction; thus a coherent, specific label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:1902348","count":2},{"id":"GO:1901601","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0017000","count":2}]},{"hash":"1503817784725384138","title":"Neural GPCR signaling and morphine response","description":"The top GO terms point to neural signaling and sensory processing, including morphine response, visual learning, operant conditioning, and opsin-mediated signaling. They also emphasize GPCR-driven pathways (adenylate cyclase activation and PLC signaling via serotonin receptors), which ties these proteins to neuronal communication and learning-related processes. Some terms touch on astrocyte movement and autonomic functions (blood pressure), suggesting a broader neuroimmune/autonomic context, but the central theme remains neural signal transduction and sensory/moperative learning pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043278","count":4},{"id":"GO:0008542","count":3},{"id":"GO:0035106","count":3},{"id":"GO:0007190","count":3},{"id":"GO:2000484","count":3}]},{"hash":"1799954084830053078","title":"Actin-based protrusion and adhesion remodeling","description":"The top GO terms center on actin-driven protrusions (filopodium and lamellipodium assembly), adhesion-dependent spreading, and Rho signaling, indicating a module focused on actin cytoskeleton remodeling and cell motility, with related vascular/heart morphogenesis terms likely reflecting broader developmental contexts.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0010765","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1230117513154141493","title":"Diverse membrane transport","description":"The proteins are annotated with a suite of transmembrane transport GO terms covering phosphate, sodium, nitrite, sugars, vitamins, xenobiotics, and even neurotransmitter loading into synaptic vesicles. This indicates a shared function as membrane transporters for diverse substrates, rather than a single specific pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015751","count":3}]},{"hash":"29786882357273718","title":"Keratinization and Hair Cycle Proteins","description":"This cluster shows GO terms for keratinization and hair cycle, pointing to structural hair keratin proteins and hair follicle biology; the proteins are likely keratin or related hair-structure components, so the name reflects the shared function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0042633","count":1}]},{"hash":"2100118984768245036","title":"Vertebrate Embryonic Morphogenesis","description":"The top GO terms cluster around embryonic development and morphogenesis across various tissues (retina, heart Purkinje cells, hindbrain rhombomeres, somites, inner ear, limbs). Although tissue-specific, they share a unifying theme of developmental processes, implying the proteins participate in general embryonic morphogenesis pathways rather than a single function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":1},{"id":"GO:0021569","count":1},{"id":"GO:0060065","count":1},{"id":"GO:0003168","count":1},{"id":"GO:0060928","count":1}]},{"hash":"980875001608825126","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"This cluster centers on actin-mediated processes: Arp2/3 nucleation, actin cortical patches, postsynaptic actin organization, and mitotic actomyosin ring assembly all point to dynamic actin remodeling. Additional terms like phagocytosis and vacuole inheritance are actin-dependent processes, while cell polarity and regulation of cell shape tie to how actin networks organize cellular geometry. The chromatin-related terms appear as noise, but the dominant signal is actin cytoskeleton dynamics and polarity.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0006909","count":2},{"id":"GO:0010628","count":2}]},{"hash":"530998134068117798","title":"Unknown","description":"The GO terms are highly diverse, spanning immune regulation, transcriptional control, wound detection, reproductive development, EMT regulation, mesangial cell development, and DNA replication initiation, with no clear single theme tying the proteins together. With only three proteins and no cohesive shared function, a precise, representative label isn\u2019t apparent.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003146","count":3},{"id":"GO:0045085","count":3},{"id":"GO:0032792","count":3},{"id":"GO:0014822","count":3},{"id":"GO:1903468","count":3}]},{"hash":"325554277937773410","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0019835","count":2},{"id":"GO:0033320","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0016126","count":1}]},{"hash":"1340610220648232192","title":"Drosophila wing imaginal disc morphogenesis","description":"The cluster\u2019s top GO terms are dominated by imaginal disc and wing development (wing disc development, imaginal disc-derived wing morphogenesis, chaeta morphogenesis), with related processes like neurogenesis and spermatogenesis also present but less central. The strongest common theme is wing imaginal disc morphogenesis in Drosophila, supported by associated cellular transport and transcription regulation terms, making this a reasonable, representative label with medium confidence.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0022416","count":2},{"id":"GO:0007476","count":2},{"id":"GO:0051292","count":2},{"id":"GO:0007291","count":2}]},{"hash":"501586444756428413","title":"Mesoderm and Heart Development","description":"The top GO terms include mesoderm development, left-right pattern formation, and somitogenesis, with related heart development references. This points to a developmental program governing mesoderm patterning and cardiovascular formation; a few immune-related terms appear as noise, but the core signal supports mesoderm/heart processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":2},{"id":"GO:0001756","count":2},{"id":"GO:0051150","count":2},{"id":"GO:0048294","count":2},{"id":"GO:0007498","count":2}]},{"hash":"1136471832119033165","title":"Oocyte Meiosis and Fertilization Regulation","description":"The terms single fertilization, oocyte differentiation, positive regulation of meiotic nuclear division, regulation of centriole/centrosome duplication, and positive regulation of cell cycle G2/M all point to the control of oocyte maturation, meiosis progression, and fertilization readiness, with some supporting but less specific terms like ribosomal export from the nucleus.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0010825","count":2},{"id":"GO:0009994","count":2},{"id":"GO:0046599","count":2},{"id":"GO:0000055","count":2}]},{"hash":"2151519878669059595","title":"Thymic T cell tolerance and transcriptional regulation","description":"This cluster is dominated by GO terms related to thymus development and T cell tolerance (central and peripheral), suggesting roles in thymic T cell education and immune tolerance. The presence of terms about transcriptional regulation and epigenetic control (RNA Pol II repression, DNA methylation, histone modification) supports a theme where these processes regulate gene expression in immune contexts. Overall, the terms point to thymic development coupled with immune tolerance and transcriptional control, though some terms are broader. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0002509","count":2},{"id":"GO:2000584","count":2},{"id":"GO:0097190","count":2},{"id":"GO:0002458","count":2}]},{"hash":"1927506991058763343","title":"Cell differentiation across tissues","description":"The top GO terms center on cell fate commitment and differentiation across diverse tissues (glial, adrenal chromaffin, astrocyte, inner ear, pancreatic cells) and developmental morphogenesis, suggesting the proteins are linked to differentiation processes rather than a specific tissue function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060415","count":1},{"id":"GO:2000820","count":1},{"id":"GO:0003329","count":1},{"id":"GO:2000763","count":1},{"id":"GO:0021781","count":1}]},{"hash":"1319102197668869613","title":"Actin Cytoskeleton Organization and Dynamics","description":"The cluster is dominated by GO terms tied to actin remodeling and cytoskeleton organization\u2014Arp2/3-mediated actin nucleation, postsynaptic actin organization, cortical actin assembly, phagocytosis, and mitotic actomyosin ring formation\u2014indicating a shared function in actin dynamics. Some unrelated terms about histone acetylation and heterochromatin appear as noise rather than core themes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0006909","count":3},{"id":"GO:0010628","count":3}]},{"hash":"1860162587690695465","title":"Unknown","description":"These 20 proteins have GO terms spanning autophagy/lysosome-related processes (Cvt pathway targeting, lysosomal membrane organization) and a wide range of regulatory and developmental processes (dopamine signaling, neuromuscular balance, dendritic spine morphogenesis, PKA signaling, glucan biosynthesis, lipase regulation, osteoblast proliferation, fungal growth). There is no clear, single functional theme uniting them, so a confident, specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0097212","count":2},{"id":"GO:0060161","count":2},{"id":"GO:0050885","count":2},{"id":"GO:0010738","count":2}]},{"hash":"1513703879297649865","title":"Unknown","description":"The GO terms show a possible autophagy/lysosome connection (cytoplasm-to-vacuole targeting and lysosomal membrane organization) but also include a wide mix of unrelated processes (dopamine signaling, neuromuscular balance, osteoblast proliferation, dendritic spine morphogenesis, yeast pseudohyphal growth), offering no coherent single function for all proteins. ","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032258","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0060161","count":3},{"id":"GO:0050885","count":3},{"id":"GO:0010738","count":3}]},{"hash":"1467812032647119260","title":"Cross-tissue embryonic development","description":"The top GO terms indicate diverse embryonic morphogenesis and organ development across multiple tissues (neural guidance, rhombomere morphogenesis, somite specification, inner ear, limb, heart structures, uterus), suggesting a broad, cross-tissue developmental role rather than a single pathway.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":2},{"id":"GO:0021569","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0003168","count":2},{"id":"GO:0060928","count":2}]},{"hash":"718599383113932835","title":"Nuclear import and protein oligomerization","description":"This cluster is dominated by nuclear transport-related terms\u2014regulation of protein import into the nucleus, NLS-bearing protein import, and tRNA export from the nucleus\u2014along with mitotic nuclear membrane disassembly and terms referencing protein oligomerization (homooligomerization and heterotrimer/heterotetramer formation). The presence of virus intracellular transport terms also aligns with nuclear trafficking. Together, these suggest proteins involved in importing/transporting components into the nucleus and assembling them into oligomeric complexes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042306","count":3},{"id":"GO:0075733","count":3},{"id":"GO:0006409","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0010827","count":3}]},{"hash":"665607604831099484","title":"Chromatin Silencing and Regulation","description":"Top GO terms cluster around chromatin architecture and epigenetic control\u2014heterochromatin formation, chromatin localization, and histone methylation regulation\u2014along with nucleolar transcription and nuclear RNA quality control, pointing to a cohesive role in chromatin silencing and transcription regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":3},{"id":"GO:1904815","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0070481","count":3},{"id":"GO:1901837","count":3}]},{"hash":"1739013987663128443","title":"APC/C-Driven Mitosis and Ubiquitination","description":"This cluster centers on mitotic cell cycle regulation and ubiquitin-mediated degradation. The terms include APC/C-dependent catabolic process, regulation of mitotic metaphase/anaphase transition, mitotic cell cycle, and K11-linked ubiquitination, pointing to APC/C-driven control of mitosis. Additional terms about meiosis I and general cell division reinforce a theme of cell division progression governed by ubiquitin-dependent proteolysis. Overall, the proteins appear linked to ubiquitin-mediated regulation of mitosis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0031145","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0030071","count":1}]},{"hash":"735234840378909916","title":"Mitochondrial tRNA aminoacylation","description":"This cluster\u2019s GO profile is dominated by mitochondrial tRNA aminoacylation activities (threonyl-, seryl-, histidyl-, thr), along with mitochondrial DNA metabolic processes, pointing to a function in mitochondrial protein synthesis and genome maintenance. The pattern is consistent with mitochondrial tRNA synthetases or closely related factors coordinating tRNA charging in mitochondria.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070159","count":2},{"id":"GO:0070158","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0006427","count":2},{"id":"GO:0006435","count":2}]},{"hash":"593490309880141520","title":"Epidermal differentiation and skin barrier establishment","description":"The cluster highlights epithelial/tensional skin biology: keratinocyte differentiation, establishment of the skin barrier, and planar cell polarity are central themes. The presence of terms related to epithelial organization (planar polarity) and barrier formation points to epidermal development, while the DNA damage and ER-stress\u2013related terms suggest stress response pathways that can accompany epidermal differentiation or damage responses. Taken together, the most representative theme is epidermal differentiation and skin barrier establishment, with accompanying cellular stress responses.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031571","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0001501","count":2}]},{"hash":"920613650527160318","title":"Mitochondrial Translation & tRNA Charging","description":"This cluster centers on translation-related GO terms, notably mitochondrial translation and specific tRNA aminoacylation (glutamyl- and glutaminyl-tRNA charging) along with related tRNA modification. The convergence on mitochondrial protein synthesis and tRNA charging suggests these proteins function together in mitochondrial translation machinery.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006424","count":1},{"id":"GO:0006425","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0032543","count":1}]},{"hash":"1043740657117585505","title":"Developmental signaling regulation","description":"The terms cluster around regulation and modulation of signaling pathways (Notch, VEGF, ERK/PI3K-AKT, apoptosis via TRAIL) with ties to vascular processes and embryonic development, suggesting a thematic group of developmental signaling networks. Some terms (spindle/meiotic components, autophagy) are less central but do not override the overall signaling-development theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0051229","count":1},{"id":"GO:0035853","count":1},{"id":"GO:1903984","count":1},{"id":"GO:0051898","count":1}]},{"hash":"915353078286147408","title":"DNA replication and repair","description":"The Top Terms are dominated by DNA synthesis and DNA damage repair processes, including homologous recombination repair of double-strand breaks, nucleotide-excision repair, and general DNA replication (leading and lagging strands). This suggests the proteins in this cluster primarily participate in genome replication and maintenance. A few additional terms appear unrelated or peripheral (e.g., lens maintenance or endosome transport), likely representing secondary annotations rather than defining the cluster's primary function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043150","count":1},{"id":"GO:1903459","count":1},{"id":"GO:1904161","count":1},{"id":"GO:0006260","count":1},{"id":"GO:1903460","count":1}]},{"hash":"1653863416853244663","title":"RNA Transcription Machinery and Ribosome Biogenesis","description":"The GO terms indicate transcription by RNA polymerases I\u2013III (including RNA-templated transcription and tRNA transcription) and ribosome biogenesis, suggesting these proteins function in transcriptional machinery linked to ribosome production.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0006386","count":3},{"id":"GO:0006385","count":3},{"id":"GO:0006360","count":3},{"id":"GO:0001172","count":3}]},{"hash":"1967025525982628733","title":"Cell adhesion and migration","description":"These proteins cluster around processes governing cell\u2013ECM interactions and movement: actin cytoskeleton remodeling, integrin signaling, substrate adhesion-dependent spreading, and cell migration; plus hyaluronan metabolism, blood vessel development, and caveolin-mediated endocytosis, pointing to membrane trafficking and ECM remodeling. There is also an immune signaling hint via T cell activation terms, but the dominant theme is adhesion and motility. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0030212","count":3},{"id":"GO:0001568","count":3},{"id":"GO:0007229","count":3}]},{"hash":"1555801990359079727","title":"Vesicle trafficking and membrane remodeling","description":"The terms cluster around intracellular transport pathways and membrane dynamics: ER-Golgi and Golgi-to-transport vesicles, lysosome/endosome transport, lysosomal membrane organization, and membrane tubulation, complemented by exocytosis and cytoskeletal regulation (Rac signaling and actin remodeling) linked to cell migration. Some terms are marked obsolete, but the core theme is vesicle trafficking and membrane remodeling during cellular movement and sorting, supporting a Medium confidence label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0097212","count":3},{"id":"GO:1902824","count":3}]},{"hash":"1281302231052201098","title":"Meiosis and cell cycle regulation","description":"The cluster\u2019s GO terms center on meiosis, centrosome/centriole duplication, and cell cycle control (e.g., regulation of centrosome duplication, centriole replication, meiotic nuclear division, oocyte differentiation, and G2/M transition), with related DNA damage response involvement. A couple of terms (ribosomal export, single fertilization) are less central, but the dominant theme is meiosis and cell cycle regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010825","count":1},{"id":"GO:0009994","count":1},{"id":"GO:0046599","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0045836","count":1}]},{"hash":"568621088362190137","title":"Chromatin organization and nucleosome assembly","description":"The terms point to chromatin-level regulation: nucleosome assembly, heterochromatin organization, and protein localization to chromatin, with supporting notes on nucleus size. These together define a chromatin organization and nucleosome-assembly functional theme for the cluster.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0070828","count":3},{"id":"GO:0097298","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0098532","count":3}]},{"hash":"375287715512489176","title":"Spliceosome and mRNA processing","description":"The GO terms are dominated by spliceosome-related processes: spliceosomal complex assembly, mRNA splicing via spliceosome, spliceosomal snRNP assembly, and tRNA processing, plus nuclear import and transcription termination, all pointing to RNA processing and nuclear RNA metabolism. The presence of P-body assembly also suggests mRNA regulation. Together these indicate a cluster of RNA splicing/processing factors.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0033962","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0000387","count":1}]},{"hash":"1988169853704233944","title":"RNA processing and ribosome biogenesis","description":"The dominant GO terms point to RNA metabolism and ribosome biogenesis, including splicing regulation via the spliceosome, termination of rRNA transcription, maturation and processing of rRNA (ITS1 cleavage, LSU-rRNA maturation), and ncRNA-mediated regulation and polyadenylation-related processes. While a couple of terms (e.g., exploration behavior, viral genome replication) seem incidental, the core functions center on RNA processing and ribosome assembly.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0006363","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0019079","count":1}]},{"hash":"621192140098037803","title":"Nucleotide metabolism and salvage","description":"The cluster\u2019s GO terms are dominated by nucleotide metabolism activities: purine ribonucleotide interconversion, CDP biosynthetic process, nucleoside monophosphate phosphorylation, ADP biosynthetic process, AMP salvage, ITP metabolic process, and nucleotide phosphorylation. These consistently point to involvement in nucleotide biosynthesis and salvage pathways, which is the most coherent shared function among the proteins. A few terms (liver/brain development, NAD+ biosynthesis) may reflect broader or pleiotropic roles or annotation artifacts but do not override the primary nucleotide-related theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015951","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0044209","count":3}]},{"hash":"265381344006316520","title":"Diverse biosynthesis and metabolism","description":"The top GO terms cluster around various biosynthetic and metabolic processes, including antibiotic biosynthesis, plant pigment (anthocyanin/cyanidin glucoside) biosynthesis, xenobiotic metabolism (glucuronidation), and dolichol-linked glycosylation, with some general cellular processes (cell cycle, cell shape). There isn\u2019t a single cohesive function tying all terms together, but the prevailing theme is broad biosynthesis/metabolism, so a broad metabolism label fits best.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0070980","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0009718","count":2},{"id":"GO:0033485","count":2}]},{"hash":"1232030409220109383","title":"Cell Redox Homeostasis and Detoxification","description":"This cluster is dominated by GO terms related to maintaining cellular redox balance and detoxifying oxidants (cell redox homeostasis, cellular oxidant detoxification, oxidation-reduction processes, and protein glutathionylation, plus arsenic-containing substance response and toxin catabolic processes). Although a few terms reference plant- or muscle-related processes, the shared function centers on redox regulation and detoxification, so the proposed label focuses on that core theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009407","count":1},{"id":"GO:0045669","count":1}]},{"hash":"611785922836873684","title":"Negative Regulation of Cellular Signaling and Trafficking","description":"The Top Terms show multiple instances of negative regulation across diverse pathways\u2014regulation of store-operated calcium channels, potassium channel activity, autophagosome maturation, and spontaneous neurotransmitter secretion, along with a regulatory effect on TLR3 signaling. This suggests the cluster comprises proteins that broadly act as negative regulators of cellular signaling and trafficking processes. Some terms (ERAD maintenance and GnRH neuron development) are less directly connected but may reflect broader roles in protein quality control and neural development, respectively. Overall, the theme is regulatory proteins that dampen or restrain multiple cellular pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904378","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0021888","count":3},{"id":"GO:0086004","count":3},{"id":"GO:0034140","count":3}]},{"hash":"224653511654143423","title":"Immune signaling and organ morphogenesis","description":"The top GO terms mix immune-related activities (basophil activation, Fc-gamma receptor signaling, NK cell chemotaxis regulation, leukocyte rolling) with developmental/morphogenesis processes (metanephric and lymph vessel morphogenesis, tubule development). This suggests a cluster of proteins with roles in both immune signaling and tissue morphogenesis rather than a single narrow function. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0045575","count":2},{"id":"GO:2000502","count":2},{"id":"GO:0072237","count":2}]},{"hash":"1894718190664360910","title":"Vertebrate Developmental Signaling","description":"The top GO terms point to vertebrate embryonic development processes (retina development, neural tube closure, seminiferous tubule development) and to regulation of signaling and ubiquitination (GTPase activity, ERK cascade, ubiquitin ligase activity). Together they suggest a cluster enriched for developmental signaling roles in vertebrates rather than a single specific function, framing these proteins as participants in embryonic development and its regulation. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0070979","count":1},{"id":"GO:0000463","count":1}]},{"hash":"380475606336177469","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080028","count":1},{"id":"GO:0021957","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0007014","count":1},{"id":"GO:2000484","count":1}]},{"hash":"2281106648652345743","title":"Neural development and embryonic morphogenesis","description":"The GO terms point to neural development (retinal axon guidance, axonal defasciculation, neural tube closure, dendritic differentiation) and broad embryonic tissue patterning (notochord formation, endodermal differentiation, trunk/tracheal growth). The PI3K/AKT signaling term supports growth/differentiation processes. While there are a few peripheral terms (e.g., coagulation, dendritic cells), the dominant theme is neural development and embryonic morphogenesis, so this label is a concise, representative name. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0035001","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0007414","count":3},{"id":"GO:0043491","count":3},{"id":"GO:0070100","count":3}]},{"hash":"1041196513068016205","title":"Lysosome-Vacuole Autophagy Trafficking","description":"The top GO terms center on lysosome/vacuole biology (cytoplasm-to-vacuole targeting via the Cvt pathway and lysosomal membrane organization), suggesting the cluster is related to lysosome/vacuole trafficking and autophagic processes. Several other terms are unrelated or peripheral (neuronal signaling, morphogenesis), but the strongest signal is lysosome/autophagy-related, supporting a lysosome trafficking theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032258","count":3},{"id":"GO:0097212","count":3},{"id":"GO:0060161","count":3},{"id":"GO:0050885","count":3},{"id":"GO:0010738","count":3}]},{"hash":"2009622744309585523","title":"Protein modification and signaling regulation cluster","description":"The GO terms combine protein modification processes (deglycosylation, dephosphorylation) with diverse signaling pathways (BMP/TGF-beta/SMAD) and developmental hints, suggesting a loose theme around how proteins are modified to regulate signaling. Although some terms are broader or from different contexts (development, chloroplast-related processes), the unifying thread is regulation of signaling through post-translational modification.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":2},{"id":"GO:0046827","count":1},{"id":"GO:0006470","count":1},{"id":"GO:0071560","count":1},{"id":"GO:0080005","count":1}]},{"hash":"498878376468781077","title":"Protein Quality Control and Degradation","description":"These proteins appear linked to maintaining protein homeostasis and turnover: chaperone-assisted refolding, aggresome formation, ubiquitin/ERAD-related degradation, proteasomal regulation of protein catabolism, and autophagy-related processes (late endosomal microautophagy). Some terms about DNA replication and viral genome replication seem incidental, but the dominant theme is cellular proteostasis and degradation pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0019079","count":1}]},{"hash":"883936888702487403","title":"Inner ear development and auditory signaling","description":"This cluster prominently features inner ear development and response to auditory stimulus, suggesting a role in auditory system formation and function. Additionally, the presence of PI3K/AKT and STAT signaling-related terms points to signaling pathways that commonly regulate development and cellular responses. Some terms are peripheral (aging, immune regulation, ECM processes), but the ear-related terms provide the strongest cohesive theme. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042531","count":2},{"id":"GO:0043491","count":2},{"id":"GO:0070100","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0010996","count":2}]},{"hash":"1049541976314946477","title":"Unknown","description":"The terms are highly heterogeneous: two core DNA metabolism terms (DNA repair and DNA replication) coexist with development (lens, cerebellum, CNS neuron development), endocytosis, cell migration, and interleukin signaling. There is no single cohesive theme that ties these functions together, so a specific, representative cluster name cannot be robustly assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0072584","count":1},{"id":"GO:0002088","count":1},{"id":"GO:0021954","count":1}]},{"hash":"806941666439288227","title":"Ras/Rho-ERK signaling and transcription regulation","description":"This cluster shows a coherent set of terms focused on small GTPase signaling (Ras/Rho) and ERK pathway modulation, together with nuclear events like DNA-templated transcription and nuclear export, as well as postsynaptic density assembly and multicellular development. The combination suggests regulatory networks that couple signaling through Ras/Rho-ERK to transcription and neuronal development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0070373","count":2}]},{"hash":"2151020217998894169","title":"Pentose phosphate pathway and related catabolism","description":"The top GO terms cluster around the pentose phosphate shunt (both standard and non-oxidative branch), pentose catabolic processes, and related carbohydrate/nucleotide metabolism (uracil catabolism, F420 metabolism) with a theme of redox balance and detoxification. While one term (thyroid hormone generation) is less consistent, the dominant theme points to PPP-linked metabolism and redox-related pathways, justifying this label as representative of the cluster\u2019s function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009052","count":1},{"id":"GO:0044262","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0019323","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1490152447990187878","title":"Purine metabolism and nucleotide salvage","description":"The top GO terms cluster around purine metabolism and nucleotide turnover\u2014adenine salvage, GMP catabolic process, xanthine metabolism, PRPP biosynthetic process, and negative regulation of purine nucleobase metabolism\u2014suggesting a shared focus on nucleotide metabolism. While some neural-related terms appear, they are less cohesive with the core purine theme, so the label emphasizes the dominant metabolic connection. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019835","count":3},{"id":"GO:0007595","count":3},{"id":"GO:0006015","count":3},{"id":"GO:0046110","count":3},{"id":"GO:0042417","count":3}]},{"hash":"1320939589975227149","title":"Mitotic spindle and cell division","description":"The GO terms are strongly dominated by mitosis-related processes: cell cycle, cell division, mitotic spindle midzone assembly, mitotic cytokinesis, and spindle pole body duplication, indicating a focus on mitotic machinery. Some terms related to mechanosensory/neuron functions may reflect annotation noise or multifunctional proteins, but the core theme is clearly mitosis and spindle dynamics. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":3},{"id":"GO:0051256","count":3},{"id":"GO:0007049","count":3},{"id":"GO:1905792","count":3},{"id":"GO:0071353","count":3}]},{"hash":"1444662039491640353","title":"Schwann cell development and PNS myelination","description":"This cluster is dominated by GO terms linked to peripheral nervous system myelination and Schwann cell development, suggesting its proteins function in glial support and myelin formation in the PNS. The additional terms on calcium sensing and immune regulation may reflect ancillary roles or broader cellular context, but the core theme centers on Schwann cell biology and PNS myelination.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:0070940","count":3},{"id":"GO:0007114","count":3},{"id":"GO:0014898","count":3},{"id":"GO:2000002","count":3}]},{"hash":"66592747648781991","title":"Proteostasis under stress","description":"Based on the GO terms, the protein set centers on cellular stress responses and protein quality control, including stress granule disassembly, heat acclimation, autophagy, proteasomal degradation, peroxisomal import, SNARE and SCF complex regulation. Together these terms suggest a coordinated proteostasis program activated by stress. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":2},{"id":"GO:0019079","count":1},{"id":"GO:0070370","count":1},{"id":"GO:0016558","count":1},{"id":"GO:1901800","count":1}]},{"hash":"510607588613962762","title":"Vacuolar trafficking and acidification","description":"The top GO terms point to vacuolar processes\u2014vacuolar acidification, vacuole organization, and protein targeting to the vacuole\u2014suggesting a core function in vacuolar protein handling and pH regulation. Additional terms related to ion transport and respiration may reflect linked energy- and ion-transfer activities associated with vacuolar function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0006623","count":1},{"id":"GO:0007033","count":1},{"id":"GO:0006878","count":1}]},{"hash":"2285472699849478521","title":"Negative regulation of cellular processes","description":"The top GO terms are dominated by phrases like \"negative regulation of ...\" across multiple, diverse processes (immune signaling, autophagy, neurotransmitter release, calcium channel activity, gene expression, etc.). This suggests a common theme of inhibition or downregulation rather than a single, coherent pathway, justifying a high-level label that captures the shared function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021888","count":2},{"id":"GO:0034140","count":2},{"id":"GO:0010216","count":2},{"id":"GO:1901340","count":2},{"id":"GO:1901097","count":2}]},{"hash":"759104741011280096","title":"Sensory neuron morphogenesis and axon guidance","description":"The top GO terms cluster around neural development and axon guidance, including semaphorin-plexin signaling, commissural neuron axon guidance, axon extension, dorsal root ganglion morphogenesis, vestibulocochlear nerve organization, and lateral line hair cell differentiation, indicating a coherent theme of sensory neuron development and pathfinding. A couple of terms related to temperature/pain responses appear but are less central and may reflect broader cellular processes or annotation noise.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071502","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0002024","count":2},{"id":"GO:1902287","count":1},{"id":"GO:1904835","count":1}]},{"hash":"728884261333448380","title":"Leptin-TOR Metabolic and Immune Signaling","description":"The top terms cluster around TOR signaling (metabolic/growth control) and leptin response, with immune signaling via IL-6 and cytokine regulation, plus growth-related and feeding behavior aspects. This suggests a coherent theme of metabolic regulation intersecting with immune and growth signals, even though a few terms relate to development or oxidative responses.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032008","count":2},{"id":"GO:0044320","count":1},{"id":"GO:0021954","count":1},{"id":"GO:1900015","count":1},{"id":"GO:0098868","count":1}]},{"hash":"2218308910947459982","title":"Ubiquitin-Dependent Proteostasis and TNF Signaling","description":"The cluster centers on ubiquitin-dependent protein catabolism (and ubiquitination, including ERAD-related activity) with links to apoptosis regulation and TNF-mediated signaling, suggesting a cohesive role in protein turnover and inflammatory/cell-death signaling. Some terms are obsolete, but the recurring theme is ubiquitin-driven proteostasis and related signaling pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1903721","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0042981","count":2}]},{"hash":"1793685263649670235","title":"Neural development and axon guidance","description":"The top terms center on neural development, especially retinal ganglion cell axon guidance and optic nerve morphogenesis, with supporting PI3K/AKT signaling and related neural patterning terms; some other terms (immune signaling, heart development) may be less directly related or noisy, but the dominant theme is neural development and axon pathfinding.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":3},{"id":"GO:0043491","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0001779","count":3}]},{"hash":"1396684776197196887","title":"Ubiquitin\u2013proteasome\u2013driven cell cycle regulation","description":"Proteins in this cluster are enriched for ubiquitination and SCF-dependent proteasomal degradation, along with core cell-division terms such as cell division, mitotic cell cycle, and cell proliferation. Some vesicle trafficking terms (COPII vesicle budding, Golgi-to-ER transport) may reflect broader proteostasis roles tied to cell-cycle progression, but the dominant signal is ubiquitin-proteasome\u2013mediated control of the cell cycle. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0035264","count":2}]},{"hash":"850095967320100604","title":"Actin Remodeling and Cell Morphogenesis","description":"These proteins cluster around cytoskeleton dynamics: direct actin remodeling terms (filament severing and depolymerization) along with cell-substrate adhesion and morphogenesis. Related terms on Ras signaling and polarized structures (axon guidance, oocyte polarity) suggest actin remodeling underlies the varied cellular shaping processes represented. Overall, the shared theme is actin cytoskeleton remodeling governing cell morphology. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010811","count":2},{"id":"GO:0000902","count":1},{"id":"GO:0007265","count":1},{"id":"GO:0033298","count":1},{"id":"GO:0045761","count":1}]},{"hash":"1695443288346003438","title":"Small GTPase signaling and actin remodeling","description":"The top GO terms cluster around small GTPase\u2013mediated signal transduction and actin cytoskeleton organization, with supporting terms for GTPase activity regulation and intracellular transport involving the ER. While insulin signaling and neural migration related terms appear, the dominant theme is GTPase-driven signaling that modulates the actin cytoskeleton and related trafficking, justifying a label focused on GTPase signaling and cytoskeletal dynamics.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":2},{"id":"GO:0021816","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0030036","count":2}]},{"hash":"1821196575443809622","title":"Neural and sensory development","description":"Most terms cluster around development of neural/sensory structures (CNS neurons, cerebellum, lens) and associated signaling (FGFR). The caveolin-mediated endocytosis term suggests membrane trafficking linked to signaling during development. Immune-related terms (IL-1 signaling, NK differentiation) appear ancillary to the main theme. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072584","count":3},{"id":"GO:0002088","count":3},{"id":"GO:0021954","count":3},{"id":"GO:0033160","count":3},{"id":"GO:0016477","count":3}]},{"hash":"189929222198623820","title":"Cardiac conduction and cell adhesion","description":"The terms show regulation of heart rate by cardiac conduction, AV node action potential, and regulation of atrial/ventricular membrane potentials, pointing to cardiac electrophysiology as the core theme. This is supported by adhesion-related terms (cell-matrix adhesion, heterophilic cell-cell adhesion) and membrane docking, suggesting intercellular communication at cardiac tissue interfaces. Immune-related terms are present but less central, perhaps reflecting shared signaling pathways or adhesion molecules that also participate in immune signaling. Overall, the cluster appears to center on cardiac cell communication and electrical activity, involving adhesion mechanisms between cells. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0060371","count":2},{"id":"GO:0060307","count":2}]},{"hash":"455593674885323990","title":"Unknown","description":"The top GO terms are scattered across cytolysis, redox processes, regulation of stem cell proliferation, various metabolic processes, embryonic development, tRNA modification, and metal ion responses. There is no single shared function or pathway linking these proteins, and the cluster has no edges or coherent functional signal, so a specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":1},{"id":"GO:0055114","count":1},{"id":"GO:2000648","count":1},{"id":"GO:0046098","count":1},{"id":"GO:0045793","count":1}]},{"hash":"419276541557282793","title":"DNA Damage Response and Apoptosis","description":"The top terms point to cellular responses to DNA damage and oxidative stress, including apoptotic processes (apoptosis), base-excision repair, DNA recombination, and hydrogen peroxide response. This suggests a cohesive theme of sensing/damaging DNA, repairing it, and deciding cell fate via apoptosis; a few terms appear as noise (obsolete or less related), but the core seems tied to DNA damage response and programmed cell death.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:2000466","count":1},{"id":"GO:0014912","count":1},{"id":"GO:1903507","count":1},{"id":"GO:0006310","count":1}]},{"hash":"237820342197862176","title":"Calcium-regulated muscle contraction and electrical signaling","description":"This cluster centers on sarcomere organization and regulation of cardiac/skeletal muscle contraction through release of sequestered calcium, with support from terms about electrical coupling and heart-rate regulation. The core theme is calcium-dependent muscle contraction and cardiomyocyte electrical activity; minor terms like redox homeostasis and apoptotic signaling are less central but not conflicting.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:2001238","count":1},{"id":"GO:0002027","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0010649","count":1}]},{"hash":"261970607908735604","title":"Ubiquitin-mediated control of apoptosis and immune signaling","description":"These proteins are heavily annotated with ubiquitin-dependent processes (ubiquitin-dependent protein catabolic process, polyubiquitination) and regulation of cell fate (necroptosis, apoptosis, cell cycle) as well as immune pathways (regulation of Toll-like receptor signaling, type 2 immune response). The transcriptional regulation by RNA Pol II term broadens this to gene expression control, while a single renal sodium absorption term is likely incidental. Overall, the cluster seems tied to ubiquitin-proteasome\u2013driven regulation of cell fate and immune signaling.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0060544","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0071157","count":2}]}]