[{"hash":"1656013364267744033","title":"Adipocyte differentiation and transcriptional regulation","description":"The cluster centers on fat cell differentiation and DNA-templated transcription, indicating adipogenic gene expression programs. It also includes mRNA processing and ubiquitination, reflecting broader regulation of RNA and protein turnover, and includes telomere maintenance and calcium signaling terms that connect to genome stability and mechanotransduction in differentiating cells.","confidence":"High","size":29,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0035994","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0032212","count":7}]},{"hash":"1927645263234825402","title":"Neuronal Growth and Synaptic Signaling","description":"This cluster centers on neural development and activity: terms like multicellular organism growth, regulation of neuron apoptotic process, Wnt signaling, and regulation of synaptic vesicle exocytosis point to roles in neuronal growth, survival, and synaptic function. Additional terms related to vitamin D response and stress responses further support neuronal regulatory pathways. A few non-neuronal growth terms are present, but the dominant theme reflects neural growth and synaptic regulation, justifying the proposed label.","confidence":"Medium","size":29,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":6},{"id":"GO:0043525","count":5},{"id":"GO:0035902","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0031384","count":4}]},{"hash":"2224138472987292913","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":371,"triangles":2939,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":23},{"id":"GO:0048026","count":21},{"id":"GO:0031047","count":20},{"id":"GO:0042255","count":19},{"id":"GO:0006265","count":19}]},{"hash":"521089338002716542","title":"TGF-beta/BMP Signaling in Development and EMT","description":"This cluster centers on signaling pathways that regulate development and epithelial-to-mesenchymal transition (EMT): SMAD phosphorylation, positive regulation of TGF-beta receptor signaling, and positive regulation of BMP signaling. It also includes genes involved in transcriptional control and various morphogenetic events (bone development, blastocyst formation, anterior commissure morphogenesis), suggesting a cohesive theme of developmentally coordinated transcriptional programs driven by TGF-\u03b2/BMP signaling and EMT processes.","confidence":"High","size":29,"edges":115,"triangles":323,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0060389","count":7},{"id":"GO:0030511","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0060348","count":6}]},{"hash":"1860002024580313095","title":"Multiorgan Development","description":"The GO terms center on developmental processes across multiple tissues and organs (gonad, limb, heart, placenta, eye, habenula, etc.), including morphogenesis and organogenesis, rather than a single pathway. This reflects a broad, cross-tissue developmental theme for the cluster. Confidence: Medium","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":9},{"id":"GO:0035116","count":8},{"id":"GO:0060527","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0001890","count":8}]},{"hash":"713783996103687341","title":"Neural and gonadal development","description":"This cluster is enriched with neural development terms (forebrain, brain, retina) and reproductive development terms (male gonad development, single fertilization, multicellular organism development), pointing to a cohesive theme of neural and gonadal formation. Additional terms like maturation of rRNA and positive regulation of TORC1 signaling appear as general cellular and growth-related processes that can accompany development but do not redefine the cluster\u2019s primary function. Overall, the dominant signal is neural and gonadal development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030900","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0007420","count":5}]},{"hash":"1137985450037769673","title":"Embryonic organogenesis and endocrine development","description":"Top GO terms cluster around embryonic development and organ formation: endocrine system development, left/right pattern formation, various differentiation programs (pancreatic B-cell, trophoblast giant cell), endocardial cushion EMT, and cartilage morphogenesis. Together these indicate a coherent theme of developmental patterning and organogenesis in the embryo. A couple of general terms (mRNA splicing and ERAD) are present but do not change the overall developmental focus.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0003323","count":9},{"id":"GO:0060806","count":9}]},{"hash":"1083530570659634056","title":"DNA Damage Response and Oxidative Stress","description":"The top GO terms cluster around DNA repair (base-excision repair, DNA recombination), cell cycle control (positive regulation of G1/S transition), and apoptosis, coupled with redox homeostasis and responses to hydrogen peroxide. This pattern points to a coherent theme of maintaining genomic integrity under oxidative stress, with signaling that links repair, cell-cycle progression, and programmed cell death. Some terms related to signal transduction and transport may reflect broader stress signaling, but the core theme remains DNA damage response and redox balance.","confidence":"High","size":29,"edges":49,"triangles":38,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":7},{"id":"GO:0006284","count":7},{"id":"GO:0045454","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0046856","count":6}]},{"hash":"758906705862146656","title":"Developmental Signaling and Cell Adhesion","description":"The cluster includes GO terms for multicellular and heart development, myelination, integrin-mediated signaling, and membrane protein ectodomain proteolysis, pointing to developmental signaling and cell-adhesion processes; transcriptional regulation and fertilization-related terms appear as broader developmental regulatory functions, supporting a cohesive theme around tissue development and signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0022011","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006509","count":2}]},{"hash":"1441407973621379993","title":"Rho-Driven Actin Remodeling and Trafficking","description":"The cluster centers on Rho-regulated actin dynamics, including actin filament depolymerization, microspike assembly, and cell adhesion, with supporting vesicle transport from ER to Golgi, pointing to coordinated cytoskeletal remodeling and membrane trafficking; some terms touch on ciliary transport and nuclear envelope organization but the dominant theme is actin-centric cytoskeleton regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0021670","count":2},{"id":"GO:0035721","count":2}]},{"hash":"360298335774040464","title":"Growth signaling and cell cycle machinery","description":"The proteins in this cluster map to GO terms spanning TORC1 signaling (growth), regulation of mitotic cell cycle, DNA damage response, GTPase activity regulation, and protein targeting to membrane, plus cilium assembly and a development-related term. While there are outliers (host-mediated viral genome activation and egg chamber formation), the dominant themes point to core growth signaling, cell cycle control, and cellular organization, suggesting a cohesive growth/division signaling module rather than disparate functions.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0044829","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0007293","count":2},{"id":"GO:0044458","count":2}]},{"hash":"849056334201877353","title":"Olfactory perception and pheromone signaling","description":"This cluster is enriched for GO terms related to olfactory sensing and pheromone detection (smell perception, pheromone detection, chemical-sensing in smell, olfactory behavior) and includes courtship behavior, pointing to a role in odor detection and mating communication; a couple of terms pertain to DNA repair and centrosome cycles, which are less related, but the dominant theme is olfactory signaling and courtship cues.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0007619","count":2},{"id":"GO:0007608","count":2},{"id":"GO:0043695","count":2},{"id":"GO:0050911","count":2}]},{"hash":"1587706756131522424","title":"Neural development and synapse assembly","description":"The cluster is enriched for terms tied to neuronal connectivity and development (positive regulation of synapse assembly, forebrain development, visual perception) plus actin cytoskeleton dynamics and cell adhesion, which together point to synapse formation and neural development as the core theme. Some terms are broader cellular processes, but the dominant signal is neural development/synapse organization.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0051683","count":2},{"id":"GO:0043547","count":2}]},{"hash":"769996469749564600","title":"Lipid metabolism and ER stress in mucosa","description":"The cluster is dominated by lipid-related processes (lipid storage, triglyceride catabolic process, cholesterol efflux, cholesterol homeostasis) and by ER/Golgi transport and unfolded protein response terms, pointing to lipid handling and ER secretory pathway activity. These are accompanied by innate mucosal immune terms (innate immune response in mucosa, negative regulation of inflammatory response), suggesting a link between lipid metabolism, ER stress, and mucosal immunity. Some terms like DNA replication and subthalamus development may be noise, but the lipid/ER/immune theme is the strongest signal.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0019915","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0002227","count":2}]},{"hash":"1479795861417468293","title":"Mesoderm development and heat response","description":"Proteins in this cluster show enrichment for developmental processes (mesoderm formation, EMT related to endocardial cushion formation, DNA-templated transcription) alongside stress-related responses (response to heat, liver regeneration). The combination suggests a set of regulatory proteins that coordinate development with stress or regenerative signaling, including regulation of kinase activity and membrane targeting. While a few terms are obsolete, the prevailing themes point to mesoderm development and heat-stress response.","confidence":"Medium","size":28,"edges":9,"triangles":3,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0001707","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0097421","count":3}]},{"hash":"871435800017773187","title":"DNA replication and cell cycle regulation","description":"The top GO terms are dominated by mitotic cell cycle, DNA replication, centrosome cycle, and positive regulation of nuclear cell cycle DNA replication, indicating a cohesive theme around nuclear DNA replication control during cell division, with some development/immune-related terms likely reflecting multifunctional proteins.","confidence":"High","size":28,"edges":28,"triangles":22,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0060291","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0071276","count":9},{"id":"GO:0006260","count":8}]},{"hash":"335284187972974377","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":62,"triangles":45,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":14},{"id":"GO:0009718","count":10},{"id":"GO:0042619","count":10},{"id":"GO:0017000","count":9},{"id":"GO:0042572","count":7}]},{"hash":"673784474800055216","title":"RNA Processing and Translation Initiation Apparatus","description":"This cluster centers on RNA metabolism and the translation machinery, with strong signals for mRNA stability and splicing regulation, ncRNA-mediated gene silencing, and assembly of translation preinitiation complexes and the small-subunit processome. The co-occurrence of spliceosome regulation and preinitiation complex assembly suggests a coordinated role in RNA maturation and preparing mRNAs for translation.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":25},{"id":"GO:0048026","count":20},{"id":"GO:0031047","count":20},{"id":"GO:1901407","count":20},{"id":"GO:0048025","count":20}]},{"hash":"157712762907889192","title":"Mitotic cell cycle and polarity regulation","description":"The top GO terms point to mitosis (mitotic cell cycle, mitotic spindle assembly, cell division) and to establishing/restricting cell polarity and cell shape, with additional signals for vesicle trafficking and ubiquitination. Together these suggest a module coordinating cell division with polarity and intracellular transport, though a subset of terms also touch on neural development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0031532","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0090307","count":4}]},{"hash":"241365876475702798","title":"Lipid and secondary metabolite biosynthesis","description":"The cluster is dominated by biosynthetic and metabolic processes across lipids and lipid-derived signaling molecules (sphingolipid, mycolic acid, retinal/retinol/retinoic acid, C21-steroid hormones) and secondary metabolites (tropane alkaloids), suggesting a cohesive theme around production of lipid-based and plant secondary metabolites. Minor terms like regulation of transcription and antibiotic response appear, but do not redefine the primary biosynthetic focus.","confidence":"Medium","size":28,"edges":155,"triangles":639,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":19},{"id":"GO:0046677","count":19},{"id":"GO:0009710","count":18},{"id":"GO:0042574","count":18},{"id":"GO:0042572","count":18}]},{"hash":"32453956676055427","title":"GPCR-GTPase signaling in brain development","description":"The cluster's top GO terms emphasize GPCR signaling that activates PKC, positive regulation of GTPase activity, and brain development, with additional signals for intracellular signal transduction, NF-kappaB regulation, and cell migration. This points to a cohesive theme of GPCR-driven signaling pathways with a neuronal development context, rather than a single discrete process. While there are related processes like mitotic cell cycle and peroxisome autophagy included, the dominant functional signal is intracellular signaling in a neural context.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0010800","count":4},{"id":"GO:0043123","count":3}]},{"hash":"27658967056626180","title":"Lymphocyte development and signaling","description":"The cluster shows a strong representation of immune-related processes, especially lymphocyte development and signaling, with B cell receptor signaling (10), germinal center formation (9), and positive regulation of pro-T cell differentiation (9) being prominent. While other terms like ubiquitin-dependent protein catabolic process and various developmental processes appear, the clearest recurring theme is immune cell development and signaling, justifying a label around lymphocyte biology rather than a broad mix. Confidence: Medium.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0050853","count":10},{"id":"GO:2000312","count":9},{"id":"GO:0007519","count":9},{"id":"GO:0042748","count":9}]},{"hash":"1626252378762498295","title":"Actin Cytoskeleton Remodeling and Filopodium/Podosome Dynamics","description":"The cluster is enriched for GO terms tied to actin cytoskeleton reorganization and the formation/ regulation of protrusive structures such as filopodia and podosomes, along with small GTPase-mediated signaling that drives these dynamics and related cell spreading/adhesion processes. While there is a diverse mix of cytoskeletal themes (including mitotic spindle assembly), the dominant pattern points to actin-driven remodeling and protrusive structure assembly in a cell-adhesion context.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0007264","count":4},{"id":"GO:0051489","count":4},{"id":"GO:0051835","count":4},{"id":"GO:0071803","count":4}]},{"hash":"2272741733058978330","title":"Neural and skeletal embryonic development","description":"The top GO terms cluster around developmental processes, especially neural development (forebrain development, neural tube closure) and skeletal system development, with many entries tied to multicellular organism development and transcriptional regulation. While there are some terms related to cell cycle and ER-stress\u2013related apoptosis and defense, the dominant theme supports embryonic neural and skeletal patterning.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0030900","count":6}]},{"hash":"2008197006569280528","title":"GTPase Regulation and Vesicle Trafficking","description":"The cluster centers on regulation of GTPase activity and GPCR signaling, with components involved in receptor internalization and clathrin-mediated endocytosis, as well as vesicle priming and exocytosis (acrosome reaction), plus ubiquitination, suggesting a cohesive role in coordinating small GTPase control with membrane trafficking and vesicle dynamics.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043087","count":4},{"id":"GO:0016082","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0007205","count":4}]},{"hash":"919391177399361429","title":"Neural signaling and sensory perception","description":"This cluster is enriched for signaling pathway terms (ERK cascade regulation, EGFR signaling, Rho signaling) and sensory-related processes (sound perception, optic nerve morphogenesis, detection of mechanical stimulus in sound). The presence of potassium and sodium ion transmembrane transport also fits neuronal function, suggesting a focus on neural signaling and sensory biology, despite a few terms related to immune signaling or drug response. Overall, the dominant theme points to neuronal signaling and sensory perception.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0035023","count":4}]},{"hash":"252300282352199231","title":"Steroid, retinoid, and alkaloid biosynthesis","description":"The cluster shows multiple biosynthetic GO terms across steroid (androgen, testosterone), retinoid (retinal/retinol) pathways, and alkaloids (tropane), plus antibiotic and LPS biosynthesis. This suggests a common theme of diverse small-molecule biosynthesis rather than a single specific function, so a label centered on biosynthesis of various metabolites fits best. ","confidence":"Medium","size":27,"edges":283,"triangles":1742,"max_degree":25,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":12},{"id":"GO:0055114","count":10},{"id":"GO:0042574","count":9},{"id":"GO:0042572","count":9},{"id":"GO:0008209","count":9}]},{"hash":"1489127955947008486","title":"TORC1-Linked Translation and Trafficking","description":"Top GO terms point to TORC1 signaling together with ER-to-Golgi vesicle transport, mRNA transport, and translation, suggesting a cluster involved in nutrient-sensing\u2013driven protein synthesis and trafficking, with supporting links to RNA processing and nuclear import. This combination implies an integrated growth-related machinery rather than a single isolated function.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051028","count":3},{"id":"GO:0060188","count":3}]},{"hash":"2105640396855576158","title":"Mitochondrial Metabolite and Cofactor Transporters","description":"The cluster centers on transport across mitochondrial membranes for diverse metabolites and cofactors (citrate, thiosulfate, heme, thiamine pyrophosphate, CoA, iron), along with related membrane-permeability regulation and fission processes, pointing to a cohesive group of mitochondrial transporter proteins.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":7},{"id":"GO:0006843","count":6},{"id":"GO:0015709","count":6},{"id":"GO:0015886","count":6},{"id":"GO:0046902","count":6}]},{"hash":"1924723430566504085","title":"Golgi\u2013ER Vesicle Trafficking and Polarity","description":"The top GO terms are dominated by ER\u2013Golgi vesicle transport (both forward COPII budding and retrograde Golgi-to-ER), alongside small GTPase\u2013driven vesicle trafficking and a notable link to cell polarity and cytoskeletal organization (filopodium assembly). This points to a cohesive module centered on ER\u2013Golgi trafficking and its role in maintaining cell shape and polarity, with some related signaling pathways. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":6},{"id":"GO:0007224","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0071963","count":5},{"id":"GO:0007264","count":5}]},{"hash":"1158050870291523057","title":"Embryonic organogenesis","description":"The top GO terms cluster around development and morphogenesis of multiple organs during embryogenesis (eye, pancreas, heart/outflow tract, placenta, midbrain, prostate, nerves) and early embryonic structures (primitive streak), indicating a general theme of multi-organ embryonic organ formation.","confidence":"High","size":27,"edges":22,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":12},{"id":"GO:0031018","count":11},{"id":"GO:0060527","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0001890","count":11}]},{"hash":"1489490123211825593","title":"Embryonic neural development with transcription regulation","description":"The top GO terms center on embryonic development and neural formation (forebrain and brain development, peripheral nervous system neuron development, primitive streak formation, hindlimb morphogenesis, single fertilization), alongside transcription-related processes (negative regulation of transcription by RNA Pol II, DNA-templated transcription). This suggests a cluster of proteins involved in coordinating transcriptional control during embryonic neural development.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8}]},{"hash":"1341310054583131781","title":"Phosphatase Regulators of ERK and Cell Cycle","description":"This cluster is dominated by GO terms involving dephosphorylation (threonine and tyrosine) and negative regulation of the ERK/MAPK cascade, along with cell cycle control (CDK activity) and kinetochore localization. The unifying theme appears to be phosphatase-mediated tuning of growth-factor signaling and cell division, typical of dual-specificity phosphatases that modulate MAPK activity and cell-cycle regulators. There are additional signals related to broader signaling pathways (e.g., insulin, T cell receptor), but the strongest coherence centers on phosphatase-driven regulation of MAPK signaling and cell-cycle processes.","confidence":"High","size":27,"edges":151,"triangles":523,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070373","count":14},{"id":"GO:0034501","count":14},{"id":"GO:0035970","count":14},{"id":"GO:0045736","count":14},{"id":"GO:0007049","count":13}]},{"hash":"1091540270275568831","title":"Developmental Morphogenesis and Signaling","description":"The cluster shows GO terms spanning tissue morphogenesis and development (renal vesicle, haltere, cervix, cerebellar development) along with related processes like cell-matrix adhesion, endocytic recycling, and signaling pathways (NF-kappaB). This points to a broad theme of developmental biology and morphogenesis, rather than a single specific function, suggesting proteins involved in shaping tissues via diverse signaling and trafficking processes. ","confidence":"Medium","size":27,"edges":150,"triangles":299,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":19},{"id":"GO:0070527","count":18},{"id":"GO:0035331","count":18},{"id":"GO:0072283","count":18},{"id":"GO:1904948","count":18}]},{"hash":"1765567750633739443","title":"Rho/Ras Signaling and Cytoskeletal Dynamics","description":"The top GO terms point to small GTPase\u2013mediated signaling (Ras, Rho) and actin cytoskeleton remodeling (lamellipodium and filopodium assembly), with supporting pathways including insulin and B cell receptor signaling. This indicates a cluster of proteins that regulate receptor-driven signaling cascades converging on cytoskeletal dynamics and cell movement. The presence of both positive and negative regulation of Ras signaling further supports a theme of tightly controlled GTPase activity guiding actin remodeling, neuron projection development, and related outcomes. Overall, the dominant theme is GTPase-driven signaling that governs cytoskeletal dynamics.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046580","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0006915","count":5}]},{"hash":"2102149851469754636","title":"Ribosome Biogenesis and Nucleolar Organization","description":"The top GO terms cluster around ribosome production (ribosome biogenesis), rRNA maturation, and nucleolus organization, indicating proteins involved in assembling and processing ribosomes and maintaining nucleolar structure. Some chromosome condensation terms appear, but the dominant signal is ribosome biogenesis and rRNA processing. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0070058","count":2},{"id":"GO:1903342","count":2},{"id":"GO:0000724","count":2}]},{"hash":"1703433302163882479","title":"Cholesterol Homeostasis and Lipoprotein Remodeling","description":"The cluster's dominant terms center on lipid and cholesterol metabolism, including triglyceride turnover, cholesterol transport, and remodeling of HDL and VLDL particles, as well as cholesterol storage and homeostasis. Occasional terms about foam cell differentiation and cellular defense are related to macrophage involvement in lipid handling. Together they indicate a cohesive function in coordinating cholesterol/lipid balance and lipoprotein remodeling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":13},{"id":"GO:0019432","count":9},{"id":"GO:0034375","count":9},{"id":"GO:0034372","count":9},{"id":"GO:0043691","count":9}]},{"hash":"78552373943392448","title":"Unknown","description":"The GO terms span a wide and diverse set of processes\u2014from signaling and stress responses (regulation of GTPase activity, cellular response to xenobiotic and estrogen stimuli) to developmental and structural roles (egg activation, myelin assembly, intermediate filament organization, sporulation membrane formation). There is no clear, single biological function tying these terms together, suggesting the cluster is heterogeneous rather than functionally cohesive.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":3},{"id":"GO:0007343","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0071442","count":2},{"id":"GO:0031642","count":2}]},{"hash":"1101482647360550369","title":"Polysaccharide Metabolism (Glycogen/Trehalose)","description":"These GO terms span both synthesis and breakdown of several polysaccharides, including glycogen, trehalose, starch, maltose, and sucrose. The common theme is carbohydrate metabolism involving polymeric glucose-containing substrates, pointing to a general role in polysaccharide processing rather than a single specific enzymatic function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":4},{"id":"GO:0044245","count":3},{"id":"GO:0005993","count":3},{"id":"GO:0005980","count":3},{"id":"GO:0005983","count":3}]},{"hash":"2176673069786822788","title":"Proliferation and Rho GTPase signaling","description":"This cluster is dominated by terms tied to cell proliferation, cell division, and the mitotic cell cycle, along with regulation of Rho GTPase signaling and cell-matrix adhesion, suggesting a coordinated role in promoting cell cycle progression while controlling cytoskeletal dynamics. Spinal cord development appears less central to the core theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0001954","count":2},{"id":"GO:0061635","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0021510","count":2}]},{"hash":"590324534426479297","title":"TLR/NLR innate immune signaling","description":"This cluster is dominated by terms related to innate immune sensing and antiviral responses, including Toll-like receptor signaling (TLR1, TLR4), cellular response to LPS, positive regulation of NLR signaling, interferon production, and defense against virus. While a couple terms (e.g., nipple morphogenesis) are less consistent with immunity, the strong representation of TLR/NLR pathways and interferon-mediated defense supports a core theme of innate immune signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0060658","count":5},{"id":"GO:0060007","count":5},{"id":"GO:0034130","count":5},{"id":"GO:0060427","count":5}]},{"hash":"600649005594452921","title":"Actin Dynamics and Mechanotransduction","description":"The top GO terms center on actin filament bundle assembly, cell migration, and cellular responses to mechanical stimuli, indicating a core theme of cytoskeleton remodeling and mechanotransduction driving movement and polarity. Additional terms (ubiquitination, signaling pathways like NOD2/NF-kappaB) reflect regulatory modulation of these processes but do not override the dominant cytoskeletal/motility signal.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0090162","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0051017","count":3}]},{"hash":"1581490151092911027","title":"Vertebrate Embryonic Development and Morphogenesis","description":"The GO terms cluster around embryonic tissue formation and patterning (craniofacial/cranial features like palate, neural crest migration, cartilage morphogenesis), along with broad development processes (placenta, endocrine system, EMT in heart development, left-right patterning), pointing to a general theme of vertebrate embryogenesis and morphogenesis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0001755","count":5},{"id":"GO:0035270","count":5}]},{"hash":"1367269956696353222","title":"Unknown","description":"The GO terms are a mixed bag (photosynthesis energy production, ribosomal assembly, mitochondrial targeting, protein ubiquitination, symbiont entry, and bradykinin catabolic processes) with no clear single theme tying them together, suggesting a heterogeneous cluster rather than a cohesive function.","confidence":"","size":26,"edges":158,"triangles":328,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0019684","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0006810","count":2},{"id":"GO:0042773","count":2}]},{"hash":"1310309705660186882","title":"Insect development and pigmentation","description":"The top GO terms emphasize insect-specific processes such as male mating behavior, caste determination influenced by environment, melanin biosynthesis, cuticle pigmentation, and hedgehog-related signaling, suggesting a role in insect development and exoskeleton patterning. Some terms about mitotic cycles and bud neck organization are more general cell-division functions, but they do not overshadow the prominent development/pigmentation signals. Collectively, the cluster appears to group proteins involved in insect development, pigmentation, and phenotype determination.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0060179","count":2},{"id":"GO:0048650","count":2},{"id":"GO:0048067","count":2},{"id":"GO:0006583","count":2}]},{"hash":"675226055285677743","title":"GTPase-Driven Developmental Signaling","description":"This cluster centers on small GTPase pathways (Rho/Rac/Cdc42-like) and their regulation, including positive control of GTPase activity, JNK signaling, and Wnt signaling, along with neural and organ development terms (forebrain, retina, heart). The common thread is GTPase-mediated signaling shaping multiple developmental contexts, suggesting a module coordinating cytoskeletal dynamics and growth signals during organogenesis. Some items (larval cuticle, ERAD) are peripheral but reflect broader developmental roles.","confidence":"Medium","size":26,"edges":17,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0046328","count":3}]},{"hash":"827513772208255442","title":"Nuclear import and chromatin assembly","description":"This cluster is enriched for GO terms related to transport into the nucleus (nuclear pore complex assembly; protein import into nucleus; NLS-bearing protein import; ribosomal protein import into nucleus) and chromatin assembly/maintenance (DNA replication-dependent chromatin assembly; meiotic sister chromatid cohesion). Together these indicate a cohesive function centered on nuclear import and chromatin organization.","confidence":"High","size":26,"edges":53,"triangles":31,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0051292","count":7},{"id":"GO:0000060","count":7},{"id":"GO:0060188","count":7},{"id":"GO:0006610","count":7}]},{"hash":"938602165058943691","title":"Multitissue Organogenesis and Development","description":"This cluster is dominated by developmental and morphogenesis terms across multiple tissues (skeletal muscle, palate roof, pituitary, midbrain, neural crest migration, cartilage, male gonad), indicating broad organogenesis. The inclusion of transcriptional regulation terms supports coordinated gene expression control during development, while the lipopolysaccharide response term appears incidental. ","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0007519","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0021983","count":9},{"id":"GO:0030901","count":9}]},{"hash":"1835999461501365382","title":"Ubiquitin-dependent degradation and NF-kappaB signaling","description":"This cluster is dominated by ubiquitination-related terms (polyubiquitination, different linkage types, ERAD) and innate immune responses, with a notable link to NF-kappaB signaling, indicating a cohesive theme of ubiquitin-dependent protein regulation in antiviral immunity.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051607","count":8},{"id":"GO:0085020","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0000209","count":8}]},{"hash":"1964657551158669721","title":"Olfactory pheromone sensing and zinc transport","description":"This cluster is dominated by GO terms for smell perception and response to pheromone, indicating a core theme of olfactory/pheromonal signaling and social behavior. Zinc ion transport and homeostasis terms appear as a secondary pattern, suggesting metal ion regulation may support olfactory neuron function or broader transporter roles. Limb development is a minor consideration and does not define the cluster's main function. ","confidence":"Medium","size":26,"edges":11,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007608","count":4},{"id":"GO:0019236","count":4},{"id":"GO:0006810","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0010312","count":2}]},{"hash":"74751797342623518","title":"Ribosome Biogenesis and Gene Expression Core","description":"This cluster is dominated by terms for ribosome biogenesis and translation, with supporting transcription and cell-cycle terms, indicating a core program of protein synthesis and gene expression. Additional regulatory signals (Wnt/JNK) and regeneration/immune-related terms suggest broader coordination with signaling and developmental processes.","confidence":"High","size":26,"edges":309,"triangles":2251,"max_degree":25,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0006412","count":5},{"id":"GO:0046330","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":3}]},{"hash":"1989707963224497389","title":"Integrin Signaling and Cytoskeleton Remodeling in Cartilage","description":"The cluster converges on integrin-mediated signaling, actin cytoskeleton remodeling and stress fiber assembly, and cell adhesion (including regulation of integrin-mediated adhesion) with cartilage condensation, suggesting a cohesive theme of integrin-driven adhesion and cytoskeletal dynamics in cartilage development; the fungal-origin response and growth hormone signaling terms may reflect broader signaling contexts but do not override the core theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031532","count":7},{"id":"GO:0007229","count":7},{"id":"GO:0060396","count":6},{"id":"GO:0051492","count":6},{"id":"GO:0007172","count":6}]},{"hash":"1985940441939919300","title":"Gene expression regulation and developmental signaling","description":"This cluster is enriched for GO terms involving core gene expression machinery (translation initiation and reinitiation, mRNA splicing, transcription) and chromatin modification (histone H4K16 acetylation), alongside growth and signaling processes (TORC1 signaling, peptidyl-tyrosine phosphorylation) and development/differentiation (lens fiber cell differentiation, forebrain development, cell proliferation). The overlap suggests proteins that coordinate gene expression with developmental signals rather than a single pathway, hence a label emphasizing both regulation of expression and developmental signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0000398","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0008283","count":7}]},{"hash":"250561545962034938","title":"Mitotic spindle regulation and APC/K11 ubiquitination","description":"The cluster shows strong representation of mitosis-related terms (mitotic cell cycle, cell division, spindle organization, and APC-dependent catabolic process via K11-linked ubiquitination), suggesting a core theme around mitotic progression and regulated protein turnover. While a few terms pertain to mRNA export and skeletal development, they are less central to the dominant signal. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0031145","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0006406","count":2}]},{"hash":"2012084806664498672","title":"Adaptive and Innate Immune Signaling","description":"This cluster is dominated by GO terms related to immune function, including adaptive immune response, innate immune response, B cell receptor signaling, and regulation of IL-2 production, pointing to a cohesive set of immune activation pathways. Some outlier terms (neural/structural development) are present but do not outweigh the clear immune-related signal.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0010863","count":5},{"id":"GO:1900042","count":5}]},{"hash":"259825862409060759","title":"Dendrite development and synaptic organization","description":"The top GO terms cluster around neuronal development and synaptic function: dendrite development, ephrin receptor signaling, regulation of synaptic structure, and cell polarity/shape maintenance, along with vesicle trafficking relevant to synaptic transport. While a heart contraction term is present, the dominant pattern supports a theme of neuronal morphology and synaptic signaling rather than muscle function. Overall, a coherent label is \u201cDendrite development and synaptic organization.\u201d","confidence":"Medium","size":25,"edges":245,"triangles":1320,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033144","count":12},{"id":"GO:1900026","count":12},{"id":"GO:0048013","count":12},{"id":"GO:1902902","count":12},{"id":"GO:0016358","count":12}]},{"hash":"1154690799972875266","title":"Mitochondrial Energy Metabolism and Proton Transport","description":"This cluster is dominated by energy-production processes (glycolytic process and TCA cycle) and components involved in proton motive force-driven ATP synthesis, plus proton and sodium transport and related membrane acidification. These patterns point to a cohesive module of mitochondrial energy metabolism and associated ion/pH transport, with a few obsolete terms that do not alter the overall interpretation.","confidence":"High","size":25,"edges":278,"triangles":1847,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006099","count":4},{"id":"GO:0006096","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0007035","count":2}]},{"hash":"1106604392881160489","title":"Autophagy-Linked Vesicle Trafficking and Lipid Synthesis","description":"The cluster centers on autophagy and vesicle transport (post-Golgi and Golgi-ER retrograde), with supporting links to lipid biosynthesis and Rho-driven signaling. This suggests a module coordinating degradation/trafficking with lipid metabolism, despite some peripheral neuromuscular or chromatin-related terms that may reflect annotation noise.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006914","count":4},{"id":"GO:0006636","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0006892","count":3},{"id":"GO:0006890","count":2}]},{"hash":"730856723641683832","title":"GPCR Signaling and Thermogenic Energy Regulation","description":"This cluster shows strong enrichment for adenylate cyclase-activating GPCR signaling and activation of adenylate cyclase, together with energy metabolism terms (electron transport chain) and thermogenesis (diet-induced, temperature response). The combination suggests coordinated signaling and mitochondrial energy production related to thermogenesis and cardiovascular regulation (e.g., blood pressure). Some terms like nipple morphogenesis and macrophage chemotaxis reflect broader developmental and immune contexts but do not override the central theme of GPCR-driven energy and thermal regulation. Confidence: Medium","confidence":"","size":25,"edges":58,"triangles":18,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0007190","count":17},{"id":"GO:0002024","count":16}]},{"hash":"1290709073351348452","title":"Protein ubiquitination and degradation","description":"The top GO terms are dominated by ubiquitination-related processes (autoubiquitination, ubiquitin-dependent protein catabolic process, polyubiquitination, protein ubiquitination, ERAD), suggesting these proteins operate in the ubiquitin-proteasome system. Immune/defense and apoptotic regulation terms appear but are secondary. Thus, the cluster can be described as proteins involved in ubiquitin-mediated proteolysis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0030433","count":6},{"id":"GO:0000209","count":6},{"id":"GO:0016567","count":6}]},{"hash":"1391358938727828226","title":"Neural development and synaptic signaling","description":"This cluster is dominated by GO terms related to brain development and neural functions, including brain development and kidney development as broad developmental contexts, and regulation of synaptic vesicle exocytosis as a direct neural process. The presence of Hedgehog/Smoothened signaling and mechanosensory response terms further supports roles in developmental signaling and neural tissue dynamics. Some terms are obsolete or less relevant (e.g., mating projection growth), likely reflecting cross-species annotations or outdated entries, but the central theme appears to be neural development and synaptic signaling.","confidence":"Medium","size":25,"edges":173,"triangles":474,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":12},{"id":"GO:0007420","count":11},{"id":"GO:0010796","count":11},{"id":"GO:0031384","count":11},{"id":"GO:2000300","count":11}]},{"hash":"943712742182863032","title":"Nutrient and ion transporter cluster","description":"Most terms describe membrane transport activities across a range of substrates (nitrate/nitrite, sugars like galactose/arabinose, fucose, sialic acid, vitamin) and ion movement (potassium). There's also a GO term for osmotic stress response and a vesicular transport process (neurotransmitter loading into synaptic vesicle). Taken together, the proteins are best characterized as a set of membrane transporters involved in nutrient and ion transport, with incidental links to osmotic adaptation and vesicular transport.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006970","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015739","count":4}]},{"hash":"2139676372576579786","title":"Insect metamorphosis and wing morphogenesis","description":"The top GO terms cluster around metamorphosis, imaginal disc\u2013derived wing hair orientation and bristle planar orientation, and Wnt signaling\u2014key elements of insect development and morphogenesis. Supporting terms include ER-to-Golgi transport and Golgi ribbon formation, reflecting the cellular machinery needed for secretory processes during tissue remodeling. Some terms like phototaxis and short-term memory are less directly linked but can reflect insect behavioral traits or annotation noise; overall, the signals point to developmental signaling and morphogenesis in insects, especially metamorphosis and wing formation.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0007552","count":2},{"id":"GO:0002003","count":2},{"id":"GO:0030177","count":2}]},{"hash":"1718254977012674577","title":"Developmental signaling in heart, muscle, and nerves","description":"This cluster is dominated by GO terms tied to heart development, multicellular organism development, myoblast fusion, and myelination, which together point to tissue differentiation and organogenesis. Additional terms on Rho protein signal transduction regulation suggest cytoskeletal remodeling during development. A few immune-related terms (innate immune response, IL-2 production) are present but do not define a single pathway; overall the common theme is developmental signaling across heart, muscle, and nervous system rather than a specific immune function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0010765","count":6}]},{"hash":"1982524567555003548","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around various developmental and morphogenetic processes\u2014mesoderm development, left-right patterning, craniofacial and hair follicle morphogenesis, and epithelial-to-mesenchymal transition in heart formation\u2014suggesting a cohesive theme of embryonic tissue development and morphogenesis. Some terms also touch on transcriptional regulation, which is commonly involved in development, but the core signal is developmental patterning and organ formation. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0031069","count":2}]},{"hash":"1311502391284962900","title":"Unknown","description":"The top GO terms span diverse developmental processes across multiple tissues (chondrocyte, heart, lung, nipple) plus pigmentation, inflammatory response, and species-specific traits (mating behavior, caste determination). There isn\u2019t a single coherent function linking these terms, so there is no clear theme to name the cluster definitively.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002063","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0072224","count":2},{"id":"GO:0007507","count":2}]},{"hash":"557813668442866610","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning antibiotic and biotin biosynthesis, multiple lipid catabolic processes, RNA methylation, and diverse stress/response and signaling pathways (toxic substances, immobilization stress, cocaine response, endocannabinoid signaling). There is no single unifying function or pathway that ties all these terms together, suggesting the cluster is functionally diverse rather than a coherent module.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0009102","count":6},{"id":"GO:0019433","count":6},{"id":"GO:0009636","count":5},{"id":"GO:0035902","count":4}]},{"hash":"1992745070309328538","title":"Broad Regulatory Processes","description":"The top GO terms are all about regulation across diverse biological activities\u2014insulin secretion, Rho signaling, GABAergic synaptic transmission, transcription by Pol I/II, DNA damage checkpoints, and even development steps like hair follicle maturation and spermatid differentiation. This cluster seems to group proteins involved in general regulatory functions rather than a single pathway, so a broad label of Broad Regulatory Processes is appropriate. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032024","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0045943","count":2},{"id":"GO:0032425","count":2}]},{"hash":"59859993137440415","title":"Developmental signaling and tissue development","description":"The top GO terms point to regulation of signaling activities (GTPase activity, serine/threonine kinase activity, autophosphorylation) together with developmental processes (multicellular organism development, skin and retina development) and a cellular stress/hypoxia response. This combination suggests a cluster of proteins involved in signaling pathways that drive tissue development and differentiation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0097274","count":5},{"id":"GO:0071902","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1225396313439719550","title":"Cellular Redox Balance and Detoxification","description":"The cluster is dominated by GO terms related to redox regulation and detoxification (cellular oxidant detoxification, redox homeostasis, glutathione metabolic process, toxin catabolic process, regulation of mitochondrial membrane potential), indicating a coherent theme around managing oxidative stress and detoxifying reactive compounds. While a few terms touch on metabolic or signaling aspects (aromatic amino acid metabolism, muscle/osteoblast regulation), these appear secondary to the core redox/detox functions. Overall, the label reflects the strongest, most prevalent functional signals in the cluster.","confidence":"High","size":24,"edges":274,"triangles":1981,"max_degree":23,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0098869","count":17},{"id":"GO:0045454","count":17},{"id":"GO:2000255","count":15},{"id":"GO:0009407","count":11},{"id":"GO:0009072","count":11}]},{"hash":"20893112298510225","title":"Dopaminergic signaling and cocaine response","description":"The cluster shows strong enrichment for neural-related GO terms: dopaminergic synaptic transmission, visual perception and learning, cocaine-related behavioral response, and ERK signaling regulation, all pointing to brain signaling and reward pathways. Additional terms like brain renin-angiotensin system support neural context, while heart development and macrophage chemotaxis are less central. Overall, the dominant theme is neural signaling with a focus on dopaminergic pathways and cocaine-associated behaviors.","confidence":"Medium","size":24,"edges":197,"triangles":854,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0010759","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0008542","count":13}]},{"hash":"367895351437168252","title":"Translation initiation and ribosome assembly","description":"This cluster is dominated by GO terms tied to forming the translation preinitiation complex, translation reinitiation, and regulation of translational initiation, plus strong signals for ribosome biogenesis and large subunit formation. These points together to a coherent theme of ribosome production and the control of starting translation, with additional but secondary links to transcription-related processes and cell proliferation. Confidence in this labeling is High.","confidence":"","size":24,"edges":136,"triangles":379,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0008283","count":5},{"id":"GO:0006446","count":5},{"id":"GO:0006351","count":4}]},{"hash":"199888842213944999","title":"Neural development and transcriptional regulation","description":"The cluster is strongly enriched for neural development terms (forebrain development, neural tube closure) and multicellular development, along with DNA-templated transcription and broader transcriptional regulation. While there are also stress/apoptosis and metal/immune-related terms, the prominent theme centers on brain development and transcriptional control, making this label representative of the core shared function.","confidence":"High","size":24,"edges":28,"triangles":18,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0007275","count":9},{"id":"GO:0030900","count":8},{"id":"GO:0006349","count":8}]},{"hash":"1032325259398272472","title":"Heart and skeletal development","description":"This cluster is dominated by GO terms for multicellular organism development, especially heart development and skeletal system development, indicating a core involvement in cardiogenesis and skeletogenesis. While there are also signals related to PI3K/ERK pathways and some immune-related terms, the strongest and most consistent themes center on heart and skeletal development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0001501","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0050853","count":4}]},{"hash":"998829437984139451","title":"Embryonic Mesoderm and Organ Morphogenesis","description":"The major terms point to tissue and organ formation during vertebrate embryogenesis\u2014nipple morphogenesis, hair follicle morphogenesis, kidney glomerulus development, lung connective tissue development, endocardial EMT, mesoderm development, and left-right patterning. While inflammatory response and negative regulation of protein kinase activity appear, the dominant theme is morphogenesis and developmental patterning, suggesting these proteins function in embryonic development and organogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060658","count":3},{"id":"GO:0060427","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0072224","count":3},{"id":"GO:0006954","count":3}]},{"hash":"993645013147795880","title":"Membrane signaling and cell adhesion regulation","description":"This cluster centers on GO terms related to membrane organization and signaling modulation (eisosomes, membrane raft polarization; PKC signaling regulation) and cell\u2013cell interaction processes (negative regulation of heterotypic adhesion, endothelial barrier establishment). While it also includes neuronal development, synaptic plasticity, mitochondrial assembly, and apoptotic signaling, the unifying theme appears to be regulation of signaling and cellular contacts at membrane interfaces rather than a single, cohesive pathway. Confidence: Low","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034115","count":3},{"id":"GO:0033617","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0050861","count":2},{"id":"GO:0061028","count":2}]},{"hash":"1155099635251891564","title":"Ion and Metabolite Transmembrane Transporters","description":"The cluster shows strong enrichment for transmembrane transport of ions (Na+, K+, phosphate, nitrate) and metabolites (glucose, fucose, sialic acid, vitamins) as well as neurotransmitter loading into synaptic vesicles, indicating a cohesive group of membrane transporter proteins with diverse substrates.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:1904659","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0098700","count":6},{"id":"GO:0015706","count":6}]},{"hash":"1711050063445558127","title":"Organ Development and Tissue Remodeling","description":"The cluster shows strong representation of development-related GO terms (multicellular organism development, growth, skeletal system development, lens fiber cell differentiation, neuron projection development) and matrix-related processes (proteolysis, collagen catabolic process), with Rho signaling modulation, suggesting coordinated organ formation with extracellular matrix remodeling and cytoskeletal changes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0070306","count":3}]},{"hash":"197778800914847793","title":"Unknown","description":"The top GO terms span diverse processes (GTPase activity regulation, cellular response to mechanical stimulus, histone methylation, spore formation, placental morphogenesis, vasculogenesis, muscle contraction regulation, muscle attachment, GPCR signaling). There is no clear, shared function that ties all 24 proteins together; several terms are obsolete or cross-species, making a cohesive cluster function unlikely to assign confidently.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0097198","count":3},{"id":"GO:0097676","count":3},{"id":"GO:0030437","count":3}]},{"hash":"1377768199294009170","title":"Ubiquitin-mediated antiviral defense and cytoskeleton remodeling","description":"This cluster centers on ubiquitination processes (ubiquitin-dependent protein catabolic process, K63-linked ubiquitination, ERAD) and innate antiviral responses, with additional signals of cytoskeletal remodeling (actin filament bundle assembly, cell migration) and epithelial polarity. The Vitamin D response may relate to immune modulation, supporting a theme of ubiquitin-driven signaling in antiviral defense linked to membrane/cytoskeletal dynamics.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0070534","count":4}]},{"hash":"607090432874174861","title":"Mitochondrial Translation and Complex IV Assembly","description":"The top GO terms point to mitochondrial protein synthesis (translation) and assembly of the respiratory chain\u2019s Complex IV, along with proton transport and ATP synthesis driven by the proton motive force. These collectively indicate a cohesive theme around mitochondrial energy production and mitochondrial gene expression, with a few outlier terms that are less central to this core function.","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:1902600","count":2},{"id":"GO:0008535","count":2},{"id":"GO:0060702","count":2},{"id":"GO:0044130","count":2}]},{"hash":"441597096301971767","title":"Female reproductive organ and mammary gland development","description":"The strongest terms cluster around development of female reproductive tissues (female gonad development, uterus development, mammary gland development), suggesting the proteins act in sexual organ formation and gland maturation. Additional terms like retinoic acid and cortisol biosynthesis point to hormonal regulation of these developmental processes, and vitamin D catabolic/metabolic terms align with endocrine signaling. A couple of terms (e.g., insecticide metabolic process) are less directly connected, likely reflecting shared detoxification pathways across tissues. Overall, the cluster appears to center on female reproductive organ and gland development with endocrine modulation.","confidence":"High","size":23,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0048565","count":5},{"id":"GO:0090350","count":4},{"id":"GO:0042904","count":4}]},{"hash":"2057615819940028163","title":"Developmental transcriptional regulation","description":"The top GO terms indicate broad transcriptional control (RNA polymerase II) combined with developmental processes across multiple organs (heart, retina, auditory system) and timing (circadian regulation), plus morphogenesis. This points to a cohesive theme of developmental gene regulation and organogenesis rather than a single tissue-specific function.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0043433","count":15},{"id":"GO:0032922","count":15},{"id":"GO:0042668","count":14},{"id":"GO:0003144","count":14}]},{"hash":"1299921725104745003","title":"P450-driven lipid and hormone metabolism","description":"These proteins cluster around cytochrome P450\u2013mediated lipid and hormone pathways: triglyceride metabolism, epoxygenase P450 activity, retinoic acid, cortisol, and vitamin D metabolism, plus insecticide metabolism. The associated development terms (uterus, mammary gland) suggest hormone-regulated processes, reinforcing a theme of lipid/hormone biosynthesis and detoxification via P450 enzymes. The mix of detoxification and regulatory GO terms supports a cohesive P450-centered metabolic cluster.","confidence":"High","size":23,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":5},{"id":"GO:0019373","count":5},{"id":"GO:0090350","count":4},{"id":"GO:0042904","count":4},{"id":"GO:0010760","count":4}]},{"hash":"2117300938071881773","title":"Proteostasis and mitochondrial quality control","description":"The cluster centers on protein quality control and mitochondrial maintenance, with strong signals for post-translational modification (deubiquitination, sumoylation), mitophagy, and aggresome assembly, plus regulation of mitochondrial fusion. These together point to coordinated proteostasis and mitochondrial quality control processes, with some peripheral signals related to metabolism and differentiation. ","confidence":"High","size":23,"edges":252,"triangles":1750,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":12},{"id":"GO:0016925","count":8},{"id":"GO:0010637","count":7},{"id":"GO:0010636","count":7},{"id":"GO:0033132","count":7}]},{"hash":"805065110601087202","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":7},{"id":"GO:0035435","count":7},{"id":"GO:0048568","count":6},{"id":"GO:0000466","count":6},{"id":"GO:0000472","count":6}]},{"hash":"2154206265714282958","title":"Developmental signaling and actin remodeling","description":"The cluster is enriched for developmental terms (multicellular organism development, skin development, spinal cord development) and signaling/cytoskeletal regulation (positive regulation of GTPase activity and kinase phosphorylation, plus Arp2/3-mediated actin nucleation), indicating a theme of developmental signaling coupled with dynamic cytoskeletal remodeling. While mitotic cell cycle and hypoxia response terms appear, the developmental and cytoskeletal signals dominate.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0043588","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0021510","count":6}]},{"hash":"912739999599008742","title":"Neural and cardiac development and signaling","description":"The GO terms cluster around nervous system development and neuron projection development, with additional signals of cardiac myofibril assembly, kinase and GTPase activity regulation, cell shape control, and proteolysis. This suggests a broad developmental and remodeling program affecting neural and cardiac tissues, governed by signaling and structural regulation rather than a single, narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0055003","count":2},{"id":"GO:0035562","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0006526","count":2}]},{"hash":"725916301279827359","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0000480","count":3}]},{"hash":"828698782619630209","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0000447","count":3},{"id":"GO:0031915","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1498123176076087243","title":"CDK-regulated cell cycle control","description":"The cluster is dominated by GO terms related to cyclin-dependent kinase regulation, DNA-templated transcription, and various aspects of the cell cycle (including G0\u2192G1 transition and mitotic processes). Additional terms point to telomere maintenance, apoptosis, and developmental processes, suggesting that these proteins jointly regulate cell proliferation and transcriptional programs with implications for cell fate. Thus, CDK-regulated cell cycle control best captures the central theme of this group.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0070317","count":4},{"id":"GO:0000278","count":3}]},{"hash":"187030011206109219","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1714810105808431811","title":"Apoptosis and Developmental Signaling","description":"The cluster is enriched for apoptosis-related GO terms, including positive regulation of neuron apoptotic process, extrinsic apoptotic signaling pathway in absence of ligand, and execution phase of apoptosis, indicating a core involvement in programmed cell death. There are also development terms (hippocampus development, heart development) suggesting roles in developmental processes, plus stress-response terms (response to antibiotic/xenobiotic stimulus) that can trigger apoptosis. Some terms like head involution and sensory perception of sound are less directly tied, but the dominant signal points to apoptosis intertwined with development and stress responses.","confidence":"Medium","size":22,"edges":46,"triangles":15,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0021766","count":3}]},{"hash":"1605747458484358209","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":16,"triangles":6,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045944","count":7},{"id":"GO:0000466","count":6},{"id":"GO:0000463","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0000462","count":6}]},{"hash":"1852846739986479135","title":"Neuronal development and axon guidance signaling","description":"This cluster is driven by terms related to nervous system development and axon guidance, including Roundabout signaling and ephrin receptor signaling, suggesting a theme of neural connectivity and guidance. Additionally, signaling cascades like ERK and vesicle transport between Golgi and ER point to neuronal signaling and trafficking aspects that support neural development processes.","confidence":"Medium","size":22,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0006890","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0050852","count":4}]},{"hash":"2021169988573114252","title":"Neural and immune response to xenobiotic stimuli","description":"The strongest signal is the GO:0042493 term for response to xenobiotic stimulus, but the cluster also includes neural/sensory processing (visual perception/learning, prepulse inhibition) and behavioral responses (to cocaine, fear) along with immune-related terms (LPS response, macrophage chemotaxis) and metabolic signaling (regulation of insulin secretion). This combination suggests proteins involved in sensing external chemicals and coordinating neural and immune responses, with metabolic context, hence the label focusing on neural and immune xenobiotic responsiveness.","confidence":"Medium","size":22,"edges":16,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0010759","count":3},{"id":"GO:0048148","count":3}]},{"hash":"290283419801537831","title":"Developmental Gene Regulation and Splicing","description":"These proteins appear linked to embryonic and organ development (heart, forebrain, cranial skeleton, visual perception) and to fundamental gene-expression processes (transcription, splicing) as well as cell-cycle control, suggesting a role in coordinating developmental programs through transcriptional and RNA processing mechanisms. ","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0048701","count":3}]},{"hash":"1191263692096721279","title":"Embryonic Development and Morphogenesis","description":"This cluster is dominated by GO terms tied to vertebrate embryogenesis and organogenesis, including neural crest migration, skeletal muscle development, pancreas development, ureteric bud branching, digestive tract morphogenesis, primitive streak formation, rhombomere and brain segmentation, and PNS neuron development. The diversity of tissue-specific developmental processes points to a cohesive embryonic-development module, with the negative regulation of transcription by RNA polymerase II likely reflecting developmental gene regulatory control. The strong connectivity (82 edges, 71 triangles) further supports a unified developmental function.","confidence":"High","size":22,"edges":82,"triangles":71,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0001755","count":7},{"id":"GO:0007519","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0090190","count":6}]},{"hash":"276832030053051178","title":"Ubiquitin-dependent proteolysis in oocyte meiosis","description":"Proteins show strong enrichment for ubiquitin-dependent proteolysis and SCF-mediated degradation, plus spindle assembly and oocyte maturation processes, suggesting a role in regulated proteolysis and spindle dynamics during oocyte meiosis.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0031146","count":12},{"id":"GO:0006516","count":8},{"id":"GO:0046785","count":8},{"id":"GO:0051436","count":8}]},{"hash":"89574901759642883","title":"Neural signaling and cytoskeletal regulation","description":"The cluster combines neural development signals (forebrain and brain development) with broad signaling and cytoskeletal control processes (TGF-beta/NO responses, GTPase regulation, kinase activity, tyrosine phosphorylation, and actin barbed-end capping), suggesting a role in neural signaling coupled to cytoskeletal dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071560","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0071732","count":5},{"id":"GO:0050731","count":4},{"id":"GO:0051016","count":4}]},{"hash":"1736963367820450165","title":"Unknown","description":"The top GO terms are very diverse (ubiquitin-dependent proteolysis, muscle and kidney development, circadian rhythm, immune processes, etc.) with no single, cohesive function linking the proteins. The low connectivity (one edge, no triangles) supports a heterogeneous cluster, so there isn\u2019t a clear, representative function to name beyond Unknown. ","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:2000312","count":13},{"id":"GO:0007519","count":13},{"id":"GO:0042748","count":13},{"id":"GO:0072156","count":13}]},{"hash":"1629016030547933523","title":"Rho/Ras-Mediated Actin Cytoskeleton Remodeling","description":"The terms cluster around actin-based protrusion assembly (lamellipodium/filopodium) and small GTPase signaling (Rho/Ras) with PI3K/AKT and insulin pathways, indicating a function in cytoskeletal remodeling linked to signal transduction; some terms like cholesterol metabolism and heart development appear as broader, less central associations.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008203","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0043491","count":2},{"id":"GO:0008286","count":2}]},{"hash":"1544514825817779144","title":"Dendritic spine morphogenesis and synaptic signaling","description":"The top GO terms are dominated by neuronal synapse-related processes: dendritic spine morphogenesis, receptor clustering, protein localization to synapse, and ephrin receptor signaling, all pointing to synapse development and signaling. Rho-mediated signaling and PI3K-related activity further support cytoskeletal remodeling and synaptic organization, with retinoic acid response tying into neuronal development. Some terms like apoptotic process or endothelial barrier are broader, but the strongest signal centers on spine formation and synaptic function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060997","count":6},{"id":"GO:0043113","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0007266","count":5},{"id":"GO:0035418","count":5}]},{"hash":"2080578215098801800","title":"ER stress response and protein quality control","description":"The top GO terms converge on unfolded protein response, ER-associated degradation, chaperone-assisted folding, misfolded protein transport, and translation regulation during ER stress, suggesting the cluster coherently represents ER quality control and stress signaling. Some terms (e.g., synaptic vesicle exocytosis, DNA replication) appear less central, likely reflecting incidental associations.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016079","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0090084","count":2}]},{"hash":"1978326501662647726","title":"Multisystem developmental and vesicle-trafficking proteins","description":"The top GO terms show development across multiple tissues (skeletal system, lens, forebrain/midbrain/hypothalamus, seminiferous tubules) along with vesicle transport between the ER and Golgi and related processes like synapse assembly. This points to a set of proteins involved in broad developmental programs that are closely linked to the secretory/vesicle-trafficking system. Hence a label that highlights both multisystem development and secretory transport is appropriate.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0072520","count":2},{"id":"GO:0021854","count":2}]},{"hash":"1146831248667002247","title":"Neural development with apoptosis and vesicle trafficking","description":"The top GO terms emphasize brain development and neuron/glial apoptotic processes, paired with vesicle transport between the ER and Golgi and related cytoskeletal dynamics. This suggests a coherent theme around neural differentiation and homeostasis requiring trafficking and remodeling, despite some more general cell-cycle terms that may reflect shared proteins. ","confidence":"Medium","size":22,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":4},{"id":"GO:0007064","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0034316","count":3},{"id":"GO:0051402","count":3}]},{"hash":"1917969460521583525","title":"Insect caste differentiation and pigmentation","description":"The dominant GO terms point to insect development and social organization, with environmental caste determination, mating behavior, and pigmentation-related processes (melanin biosynthesis and cuticle pigmentation) plus differentiation. Some terms like angiotensin maturation and cardiac conduction are less clearly tied to insects and may reflect annotation noise or broad proteolytic processing, but the core cluster aligns with insect caste development and pigmentation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060179","count":3},{"id":"GO:0048650","count":3},{"id":"GO:0048067","count":3},{"id":"GO:0006583","count":3},{"id":"GO:0030154","count":2}]},{"hash":"1808166768030006477","title":"Gene Expression and Cell Cycle Machinery","description":"This cluster is dominated by GO terms tied to core gene expression processes\u2014transcription (DNA-templated), RNA polymerase II regulation, RNA processing (splicing and rRNA maturation), and translation with ribosome biogenesis\u2014alongside cell division and mitotic cell cycle. Together, these terms point to a cohesive theme of the cellular machinery that governs gene expression and its coordination with the cell cycle.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000462","count":3}]},{"hash":"2113749360036875946","title":"Neural and retinal development with transcriptional regulation","description":"This cluster centers on neural and retinal development and transcriptional control, as shown by enrichment for transcription by RNA polymerase II and DNA-templated transcription, plus retina development and synaptic organization (terminal button), with supportive neural and inflammatory signaling signals. The combination of transcriptional regulators and neural/retinal development terms, alongside related synaptic and APP-associated processes, points to a cohesive neural developmental theme.","confidence":"Medium","size":21,"edges":189,"triangles":982,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0002076","count":6},{"id":"GO:0002087","count":6},{"id":"GO:0008285","count":6}]},{"hash":"49508992701454816","title":"Innate immune defense and vascular adhesion","description":"Explanation: Enrichment includes defense against fungi and Gram-positive bacteria, neutrophil killing, leukocyte tethering/rolling, endothelial barrier regulation, and fibrinogen control, indicating a coordinated inflammation and leukocyte\u2013endothelium interaction program.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":6},{"id":"GO:1903142","count":6},{"id":"GO:0050832","count":5},{"id":"GO:2000097","count":5}]},{"hash":"1055550303415525987","title":"Lipid metabolism and oxidative stress response","description":"The cluster shows strong enrichment for triglyceride catabolic and biosynthetic processes and HDL particle remodeling, highlighting lipid metabolism and lipid particle remodeling. It also includes oxidative stress-related terms (cellular response to oxidative stress, cellular oxidant detoxification), indicating a concurrent stress-defense theme. While some basic cellular processes (DNA replication, ER-Golgi transport) are present, the lipid-centric terms are prominent, supporting a label focused on lipid metabolism with oxidative stress response.","confidence":"High","size":21,"edges":9,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0034599","count":3},{"id":"GO:0070682","count":3}]},{"hash":"1234134137234699308","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":12,"triangles":3,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0033384","count":5},{"id":"GO:0006695","count":5},{"id":"GO:0033386","count":5},{"id":"GO:0045337","count":5},{"id":"GO:0043693","count":5}]},{"hash":"1449380945122866431","title":"Synaptic Transmission and Plasticity","description":"This cluster is dominated by neuronal signaling and plasticity terms: ion transmembrane transport (Na+, K+), excitatory postsynaptic potential, and positive regulation of long-term synaptic potentiation point to synaptic transmission and LTP processes. Behavioral terms like startle response and conditioned taste aversion reflect downstream neural circuit activity, and the paranode axon localization term supports a neural localization context. Together, these terms suggest a cohesive group centered on synaptic signaling and plasticity in neurons.","confidence":"High","size":21,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":3},{"id":"GO:0071805","count":3},{"id":"GO:1900273","count":3},{"id":"GO:0001964","count":3},{"id":"GO:0035725","count":3}]},{"hash":"651987511175466129","title":"Neuronal vesicle trafficking and exocytosis","description":"One core theme across the terms is vesicle transport and regulated exocytosis, including calcium-dependent exocytosis (and acrosome reaction), ER-to-Golgi and Golgi-to-vacuole transport, intra-Golgi transport, and actin-mediated vesicle movement. The presence of brain development and long-term potentiation suggests a neuronal context for these trafficking processes, while Cvt pathway/vacuolar transport and autophagy-related targeting indicate broader intracellular transport functions. Overall, the cluster appears to group proteins involved in vesicle trafficking and exocytosis, with neural relevance.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":3},{"id":"GO:0032258","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006886","count":2},{"id":"GO:0045956","count":2}]},{"hash":"1467082281895845962","title":"ER-Golgi trafficking and stress signaling","description":"This cluster is dominated by vesicle transport between the endoplasmic reticulum and Golgi (retrograde and ER-to-Golgi), with translation and multiple stress-related pathways (JNK activation, necroptosis, apoptosis) also represented. The combination suggests a functional theme around ER-Golgi trafficking coupled to cellular stress responses and death signaling, rather than a single narrow process. Some terms (e.g., viral mRNA export) may reflect contextual or incidental associations rather than core function. Confidence: Medium.","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0044130","count":2},{"id":"GO:0046784","count":2}]},{"hash":"32253182315176006","title":"Ribosome Biogenesis and Development","description":"This cluster combines ribosome biogenesis with developmental and growth-related processes (brain development, multicellular growth, fertilization, osteoblast differentiation, and cell proliferation), suggesting a theme of coupling protein synthesis capacity to developmental programs. Chromatin-related terms (CENP-A assembly, histone acetylation) add a layer of cell-cycle regulation, while a few immune-related terms appear tangential. Overall, the dominant signal points to growth and development tied to ribosome assembly and chromatin dynamics.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0008283","count":4}]},{"hash":"2198280490817214067","title":"Amino acid catabolism and central metabolism","description":"The top GO terms point to amino-acid catabolic pathways (L-alanine, L-lysine, L-kynurenine), plus core metabolic routes (TCA cycle, glyoxylate catabolism) and biosynthesis of cofactors (protoporphyrinogen IX, biotin). This suggests a metabolic module focused on amino acid breakdown and energy production. Notch signaling and DNA-templated transcription appear as peripheral annotations and may reflect background or multi-functional proteins rather than a core theme. ","confidence":"Medium","size":20,"edges":183,"triangles":1017,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":6},{"id":"GO:0007219","count":6},{"id":"GO:0033512","count":6},{"id":"GO:0097053","count":6},{"id":"GO:0019878","count":5}]},{"hash":"1214930015710540416","title":"Ribosome Biogenesis and Translation Machinery","description":"This cluster is heavily enriched for processes related to ribosome production and function: ribosome biogenesis, translation, initiation complex formation, translation reinitiation, and maturation of rRNA components, plus cytoplasmic translation and rRNA methylation. These together point to proteins that assemble and operate the ribosome and the translation apparatus, rather than a single specific pathway. ","confidence":"High","size":20,"edges":128,"triangles":484,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0036265","count":2}]},{"hash":"2161005303703667062","title":"Dopaminergic Pain Signaling and Drug Response","description":"The top GO terms center on neural signaling related to pain perception and dopaminergic synaptic transmission, with clear associations to behavioral responses to cocaine and morphine. Prostaglandin and temperature-related terms suggest broader neuromodulation, and there are a few metabolic/heart-related terms that may be peripheral. Overall, the dominant theme is dopaminergic neural signaling linked to pain and drug response.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0007507","count":4},{"id":"GO:0071380","count":4}]},{"hash":"524045460022893213","title":"Neurodevelopment and organogenesis","description":"Because the top GO terms cluster around neural development (floor plate development, spinal cord motor neuron fate specification, amacrine and interneuron differentiation) and broader organogenesis (lung vasculature and bronchiole development, endocrine pancreas development) alongside transcription by RNA polymerase II, this set likely represents proteins involved in vertebrate developmental patterning across neural and visceral tissues.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0060426","count":12},{"id":"GO:0001756","count":12},{"id":"GO:0035881","count":12},{"id":"GO:0033504","count":12}]},{"hash":"363839742543704812","title":"Cross-Tissue Development and Proliferation","description":"The terms point to development in several tissues (heart, muscle, nervous system) and linked cell-cycle events (mitosis, G2/M), plus morphogenetic processes like axonogenesis and myoblast fusion. A few terms (visual perception, ABA signaling) seem outliers, but the dominant theme is cross-tissue development and proliferation.","confidence":"Medium","size":20,"edges":86,"triangles":200,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":20},{"id":"GO:0007601","count":20},{"id":"GO:0043547","count":16},{"id":"GO:0007520","count":10},{"id":"GO:0007275","count":10}]},{"hash":"281493527144415433","title":"Stress and Innate Immune Signaling","description":"The terms point to stress-related responses (cellular response to mechanical stimulus, response to muscle stretch) and regulatory signaling (protein ubiquitination; NOD2 signaling; defense against Gram-positive bacteria), with broader processes like cell growth and telomere maintenance. While the annotations are diverse, they collectively depict a network of stress- and immune-related signaling pathways rather than a single enzymatic activity. Some terms are obsolete, indicating noise in annotation, but the overall theme remains recognizable.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0032088","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1427512876465708517","title":"Cardiac Muscle Development & Sarcomere Organization","description":"The GO terms cluster around heart development, actin/sarcomere organization, and transcriptional regulation, suggesting proteins involved in cardiac muscle differentiation and assembly of the contractile apparatus. Some transcription terms may reflect broader developmental programs, but the core theme points to cardiac muscle development and sarcomere assembly.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0061049","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0006351","count":2}]},{"hash":"252216958977911545","title":"Neuronal signaling and synapse organization","description":"The top GO terms predominantly point to nervous system functions: transmission of nerve impulse, synapse organization, sensory perception of sound, and collateral sprouting, indicating a cluster centered on neural signaling and synaptic remodeling. There are a few outliers (proteolysis, Rho signaling, germ cell death, tight junction assembly, transcription regulation) that are less central to neural function but may reflect broader regulatory or developmental processes interacting with neural activity. Overall, the neural-centric terms dominate, justifying the label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0035234","count":2},{"id":"GO:0070830","count":2}]},{"hash":"594863116421817282","title":"Gene Regulation and Chromatin Dynamics","description":"The cluster centers on gene expression control and chromatin state, highlighted by DNA-templated transcription, mRNA splicing, histone H3-K9 methylation, and ubiquitination. While also including terms linked to development (brain development, mitotic spindle assembly) and stress/response (antibiotic, cadmium, nutrient), the core theme ties to transcriptional regulation and chromatin remodeling, with related cellular and developmental processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:2000601","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0007584","count":2}]},{"hash":"1235885759032908377","title":"Embryonic Organogenesis and Tissue Development","description":"The top GO terms point to development and morphogenesis across multiple organs (brain, pancreas, digestive tract, ureteric bud, gonads, neural crest), indicating a common theme of embryonic tissue formation and organ development. The presence of a transcriptional regulation term aligns with regulatory control during developmental processes.","confidence":"High","size":19,"edges":6,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0001755","count":6},{"id":"GO:0090190","count":6},{"id":"GO:0048557","count":6}]},{"hash":"216629910221218377","title":"Ribosome Biogenesis and Protein Synthesis","description":"The cluster is dominated by GO terms related to translation and ribosome biogenesis (translation, translational initiation/termination, ribosomal small subunit biogenesis, maturation of SSU-rRNA, etc.), indicating a coherent group of proteins involved in ribosome assembly and protein synthesis. A few terms like glial cell proliferation appear sparsely and are not central to the cluster\u2019s core function. This makes the label a good representation of the cluster\u2019s primary role.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0042254","count":7},{"id":"GO:0006413","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0006415","count":4}]},{"hash":"1973542613947765194","title":"DNA damage response and cell cycle regulation","description":"This cluster centers on transcriptional control linked to stress and DNA damage (DNA-templated transcription, response to X-ray), coupled with regulation of the cell cycle (G2/M transition) and progression signals, plus auxiliary stress-response pathways such as ER unfolded protein response and autophagy initiation, indicating a cohesive theme of coordinating transcription with DNA damage and cellular stress responses.","confidence":"Medium","size":19,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0010165","count":3},{"id":"GO:0000411","count":2},{"id":"GO:0010389","count":2},{"id":"GO:0033601","count":2}]},{"hash":"1816118694890856177","title":"Golgi-ER Retrograde and COPII Vesicle Trafficking","description":"This cluster is dominated by GO terms describing vesicle transport within the secretory pathway, especially retrograde Golgi-to-ER transport, COPII-coated vesicle budding, and Golgi-to-plasma membrane trafficking, indicating a cohesive role in Golgi\u2013ER / COPII\u2013driven trafficking. While a few terms touch on signaling or development, the vesicle trafficking functions are most representative of the group.","confidence":"High","size":19,"edges":59,"triangles":58,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":7},{"id":"GO:0000186","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0090114","count":6},{"id":"GO:0035385","count":6}]},{"hash":"1140309295184969066","title":"Developmental transcriptional regulators and signaling","description":"The top GO terms cluster around DNA-templated transcription and key developmental signaling pathways (hippo and Wnt), with keratinocyte differentiation, heart development, and apoptosis, plus regulation of nuclear export and microtubule localization. This suggests a cohesive theme of transcriptional control during organismal development and epithelial differentiation orchestrated by major signaling networks.","confidence":"High","size":19,"edges":11,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0007275","count":11},{"id":"GO:0046827","count":11},{"id":"GO:0035329","count":11},{"id":"GO:0060044","count":11}]},{"hash":"1240643776648957002","title":"Neural development and myelination","description":"The strongest signals are neural-specific: myelination in the peripheral nervous system and development of neural structures like the substantia nigra, suggesting the protein cluster is focused on nervous system development and myelination. Other terms ( xenobiotic response, cytoskeletal signaling, and immune-related processes) appear more peripheral or noise-like relative to the dominant neural development theme, but do not override the core pattern. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":4},{"id":"GO:0017000","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0035690","count":3},{"id":"GO:2001241","count":3}]},{"hash":"393849810559221617","title":"Unknown","description":"The top terms are a mix of animal inflammatory signaling (TNF, NF-kB, LPS, UV response, extrinsic apoptosis) and plant-specific cell wall processes, with no clear single function tying the proteins together. Given the lack of a cohesive theme and sparse connectivity, a specific label is not justifiable.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0009831","count":2},{"id":"GO:2001009","count":2},{"id":"GO:0009663","count":2}]},{"hash":"1047415914299801795","title":"Developmental transcriptional and apoptotic regulation","description":"The top GO terms cluster around transcriptional regulation (negative regulation of transcription by RNA Pol II; regulation of DNA-templated transcription), development (mesoderm formation; bud elongation in lung branching; T cell homeostasis), and processes like apoptosis and cell cycle, suggesting a set of proteins involved in controlling gene expression during development with concurrent roles in cell fate decisions and signaling. A concise label capturing this theme is \"Developmental transcriptional and apoptotic regulation.\"","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0030512","count":2},{"id":"GO:0043162","count":2},{"id":"GO:0060449","count":2},{"id":"GO:0035307","count":2}]},{"hash":"414415590654292686","title":"Neural development and ribosome biogenesis","description":"The terms show brain development (forebrain, brain) and multicellular development, plus translation-related processes (formation of translation preinitiation complex, translation reinitiation) and ribosomal large subunit biogenesis. This suggests a cluster of proteins involved in neural development that also require active protein synthesis machinery, with proliferation signals supporting growth during development.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1236908801137580959","title":"Sugar Catabolic Pathways","description":"The GO terms point to multiple sugar- and carbohydrate-related catabolic processes (glycerol, rhamnose, arabinose, fucose, xylulose, glucuronate) and a carbohydrate phosphorylation step, suggesting a cluster enriched for carbohydrate breakdown pathways. Some terms (IL-13 response, quorum sensing) are peripheral noise, but the core theme is carbohydrate catabolism.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035963","count":4},{"id":"GO:0009372","count":4},{"id":"GO:0046167","count":4},{"id":"GO:0019301","count":4},{"id":"GO:0019563","count":4}]},{"hash":"1147173519849875238","title":"Lipid biosynthesis and glycolytic regulation","description":"The cluster's terms center on lipid metabolism (triglyceride biosynthesis, glycerol/glycerol-3-phosphate turnover, pantothenate biosynthesis) and on energy pathways (positive regulation of glycolysis). This suggests proteins involved in lipid synthesis and carbohydrate energy production. Some terms also reflect signaling and stress responses (PKC signaling, TNF response) and ion transport/cardiac membrane processes, which may reflect broader metabolic regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0071356","count":2},{"id":"GO:0006973","count":2}]},{"hash":"868688065436446500","title":"Neuronal endosome trafficking and signaling","description":"The cluster features GO terms centered on endosome transport (early to late endosome, endosome to lysosome, receptor recycling), GTPase/Rho signaling, and neural-related processes (gliogenesis, chemical synaptic transmission, GnRH response, cell morphogenesis). Together these point to a cohesive theme of endosomal trafficking coordinating signaling and morphogenesis in neural cells.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097211","count":2},{"id":"GO:0042063","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0008333","count":2}]},{"hash":"1030783700795122717","title":"Diverse Oxidative Metabolism and Detoxification","description":"The cluster\u2019s terms point to a broad set of oxidative and catabolic processes (oxidative/reduction, pentose-phosphate shunt and its oxidative branch) along with detoxification and catabolism of varied substrates (valine, inositol, uracil, stilbene, prostaglandin). This indicates a collection of proteins involved in diverse oxidative metabolism and detox pathways rather than a single specific pathway, justifying a label that captures broad oxidative catabolic activity.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006098","count":4},{"id":"GO:0006574","count":3},{"id":"GO:0009051","count":3},{"id":"GO:0019310","count":3}]},{"hash":"1103562623868218697","title":"RNA processing and translation initiation machinery","description":"Based on the top GO terms, the proteins cluster around RNA metabolism and the assembly/ regulation of translation initiation complexes: eIF4F complex and preinitiation complex formation, small-subunit processome assembly, translation reinitiation, and spliceosome-mediated splicing with mRNA export. This combination points to a cohesive group involved in RNA processing and the initiation of translation, including ribosome biogenesis aspects, rather than a single isolated function.","confidence":"High","size":18,"edges":27,"triangles":14,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0097010","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0075525","count":3},{"id":"GO:1905663","count":3}]},{"hash":"722593187160346313","title":"Organic compound metabolism and detoxification","description":"The cluster shows broad enrichment for metabolism-related GO terms, including retinol/retinal metabolism, bile acid and naphthalene/doxorubicin catabolic processes, fructose biosynthesis, prostaglandin biosynthesis, and an oxidative stress\u2013related response. This pattern points to proteins involved in processing a variety of organic compounds and mitigating xenobiotic/toxic stress, rather than a single highly specific pathway. Confidence: Medium","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042572","count":11},{"id":"GO:0055114","count":11},{"id":"GO:0046370","count":10},{"id":"GO:0042574","count":9},{"id":"GO:0044598","count":8}]},{"hash":"101568722045184238","title":"GPCR-cAMP Signaling and Proliferation","description":"These proteins cluster around G protein-coupled receptor signaling that activates adenylate cyclase and modulates GTPase activity, which in turn relates to regulation of cell proliferation and macrophage chemotaxis. Developmental processes (retina development, nipple morphogenesis) and energy metabolism (electron transport chain) appear as adjacent themes, but the core signal transduction and proliferation-related terms dominate. Confidence: Medium","confidence":"","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0043547","count":12},{"id":"GO:0008283","count":12}]},{"hash":"1893975533170675583","title":"Potassium Ion Transport and Membrane Potential Regulation","description":"The top GO terms are dominated by potassium ion transmembrane transport and related processes (including potassium export and membrane depolarization in cardiac tissue), suggesting a coherent theme around potassium handling and membrane potential modulation. Other terms (cGMP signaling, CO/CO2 responses, and T cell signaling) appear subordinate or peripheral to this main theme, so the label reflects the strongest signal in the cluster.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0071321","count":4},{"id":"GO:0034767","count":4},{"id":"GO:0010754","count":4},{"id":"GO:0086045","count":4}]},{"hash":"998184319528263304","title":"Neural development and synapse formation","description":"The cluster shows strong enrichment for neuron migration, positive regulation of synapse assembly, myelination, and homophilic/heterophilic cell-cell adhesion, all key processes in neural development and synapse maturation. ERK signaling modulation also fits neuronal development contexts. While heart development and angiogenesis appear, they likely reflect shared developmental signaling rather than the cluster\u2019s core function. Confidence: Medium","confidence":"","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":10},{"id":"GO:0043031","count":9},{"id":"GO:0001764","count":9},{"id":"GO:0001525","count":9},{"id":"GO:0007156","count":9}]},{"hash":"923519037928907422","title":"Vesicle trafficking and exocytosis regulation","description":"This cluster is dominated by GO terms tied to membrane trafficking processes: COPI-coated Golgi vesicles, endosome-to-plasma membrane and endosome-to-lysosome transport, positive regulation of calcium-dependent exocytosis, and membrane tubulation. Acrosome assembly also aligns with Golgi-derived secretory pathways, reinforcing the trafficking/exocytosis theme. The presence of Rac signaling modulation and spine development terms can relate to cytoskeletal and membrane organization that supports vesicle trafficking. Overall, the common thread is regulated vesicle transport and exocytosis across Golgi, endosomes, and plasma membrane.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033601","count":2},{"id":"GO:0048205","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0001675","count":2},{"id":"GO:0045956","count":2}]},{"hash":"623862191608650298","title":"Intracellular Signaling and Trafficking","description":"The terms point to signaling regulation (Rho/Ras), cytoskeleton dynamics (microtubule movement), and vesicle trafficking (ER-to-Golgi transport) as core themes, suggesting a cluster centered on intracellular communication and transport processes. Some terms (translation, immune signaling) are peripheral but don\u2019t override the main pattern of signaling and trafficking. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1820809145063923367","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0009113","count":1}]},{"hash":"1656851782952543763","title":"Glutamatergic synaptic signaling and learning","description":"This cluster centers on neural communication and plasticity, with multiple terms for AMPA receptor activity, synaptic transmission, excitatory postsynaptic potential, and learning. Retina development and osteoblast development are present but seem less central, so the core theme reflects glutamatergic synaptic signaling and learning.","confidence":"High","size":18,"edges":124,"triangles":454,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0002076","count":6},{"id":"GO:0002087","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0042493","count":5}]},{"hash":"1340001869915825826","title":"Embryonic Development and Transcription Regulation","description":"The top GO terms indicate broad involvement in embryonic development across multiple tissues (male gonad, placenta, heart, eye, hindlimb, in utero development), plus transcriptional control (DNA-templated transcription; negative regulation of RNA polymerase II). This pattern suggests a cluster focused on embryogenesis programs and gene expression regulation rather than a single organ-specific function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":6},{"id":"GO:0001701","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0035116","count":5}]},{"hash":"2178403359241343921","title":"Neural Development and Synaptic Function","description":"The strongest signals are neural- and synapse-related: retina development in the camera-type eye points to neural development; terminal button organization and receptor internalization reflect synapse assembly and endocytosis; amyloid precursor protein metabolic process ties to neuronal APP processing at synapses. Transcription by RNA polymerase II and lipid catabolic processes are general cellular processes that accompany many clusters but do not override the neural/synaptic theme. An isolated GO term for osteoblast development is present but does not define the cluster.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":10},{"id":"GO:0002076","count":9},{"id":"GO:0002087","count":9},{"id":"GO:0006366","count":8},{"id":"GO:0042982","count":6}]},{"hash":"994219360299913559","title":"Mechanotransduction and Cytoskeletal Remodeling","description":"The cluster contains GO terms centered on sensing and responding to mechanical stimuli (cellular response to mechanical stimulus, sensory perception of touch) and driving cytoskeletal changes (stress fiber assembly, establishment/maintenance of cell polarity regulating cell shape). It also highlights signaling pathways linking mechanical cues to responses (small GTPase-mediated signal transduction, ERK cascade, peptidyl-serine phosphorylation) and regulatory processes (protein ubiquitination). Mitochondrial fission may reflect structural and energetic reorganization during remodeling, supporting the mechanotransduction theme.","confidence":"High","size":18,"edges":18,"triangles":0,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0033138","count":6},{"id":"GO:0043149","count":6},{"id":"GO:0050975","count":6}]},{"hash":"1432561913435971224","title":"Muscle development and signaling","description":"Top GO terms include myoblast fusion, heart development, and response to muscle activity, suggesting a cohesive pattern of muscle growth and function. Hippo signaling relates to tissue growth control, aligning with developmental processes that shape muscle and heart. The presence of neuronal terms like excitatory postsynaptic potential and long-term synaptic potentiation may reflect neuromuscular signaling at the neuromuscular junction or broader synaptic signaling components; overall the cluster appears centered on muscle development and function rather than a neuron-specific process.","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071361","count":5},{"id":"GO:0060079","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0007520","count":3}]},{"hash":"942463918960285995","title":"Chromatin remodeling and histone modification","description":"This cluster is dominated by GO terms tied to nucleosome positioning, histone acetylation/methylation, and transcription initiation regulation, all pointing to chromatin structure\u2013mediated control of gene expression. The appearance of an AV canal development term may reflect developmental roles of chromatin regulators, but the overarching theme is histone modification and nucleosome dynamics.","confidence":"High","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016584","count":4},{"id":"GO:1900050","count":3},{"id":"GO:0036302","count":3},{"id":"GO:0071441","count":3},{"id":"GO:0001178","count":3}]},{"hash":"778150762390469486","title":"Cardiac development and contractile regulation","description":"The cluster is strongly enriched for terms tied to heart development and cardiac muscle contraction, including regulation of calcium release affecting contraction and positive regulation of contraction force, plus actin cytoskeleton remodeling. While a few terms touch broader developmental processes (bone ossification, metanephric development), the prominent cardiac-related GO terms suggest a coherent theme around cardiac development and the regulation of cardiac muscle function. This makes a label centered on cardiac development and contractile regulation an intuitive match for the cluster\u2019s functional signature.","confidence":"High","size":18,"edges":19,"triangles":3,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0006469","count":6},{"id":"GO:0072221","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1799391221075153916","title":"Multi-tissue development and differentiation","description":"The top GO terms point to development across multiple tissues and lineages\u2014Schwann cell development, heart and muscle formation (heart development, myoblast fusion, cardiac muscle cell proliferation), and sensory structures (visual perception, labyrinthine layer development). There is also a cell cycle and signaling component (G2/M transition, peptidyl-threonine phosphorylation) that supports proliferative development. A plant-specific term appears to be annotation noise, but the overall theme is broad tissue development and differentiation.","confidence":"Medium","size":18,"edges":58,"triangles":77,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0014044","count":17},{"id":"GO:0000086","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0009738","count":17},{"id":"GO:0007601","count":17}]},{"hash":"2144869000631457362","title":"Endocytic Vesicle Trafficking","description":"This cluster centers on endocytosis and vesicle transport, including endosome-to-lysosome and endosome-to-postsynaptic membrane routes, as well as regulation of small GTPases involved in trafficking and aspects of cell polarity. While a couple of terms (e.g., mitochondrial outer membrane permeabilization, mitotic cell cycle) are peripheral, the dominant pattern points to vesicle trafficking and endocytic processes.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006897","count":6},{"id":"GO:0031532","count":5},{"id":"GO:0098887","count":5},{"id":"GO:0071963","count":5},{"id":"GO:0035646","count":5}]},{"hash":"233509150163448198","title":"Multisubstrate Membrane Transport","description":"The cluster is enriched for transmembrane transport processes across diverse substrates, including ions (sodium, nitrate/nitrite, phosphate), neurotransmitter loading into vesicles, and xenobiotics, suggesting a general role in membrane transport rather than a single substrate.","confidence":"High","size":18,"edges":24,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":6},{"id":"GO:0015706","count":6},{"id":"GO:0035435","count":6},{"id":"GO:0042891","count":6},{"id":"GO:0035461","count":6}]},{"hash":"585142324468537453","title":"Membrane transporters and osmotic stress response","description":"The proteins are enriched for a broad set of membrane transport processes (ion, nutrient, sugar, vitamin transport) and an osmotic stress response term, plus a vesicle loading term related to neurotransmitter transport. This points to a cluster of diverse membrane transporter proteins involved in osmotic adaptation.","confidence":"High","size":18,"edges":13,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006970","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0070715","count":3},{"id":"GO:0006817","count":3}]},{"hash":"1051939198699152854","title":"Translation Initiation and Reinitiation Regulation","description":"The cluster is dominated by GO terms related to the initiation and reinitiation of translation, including formation of the translation preinitiation complex, translation reinitiation, and IRES-dependent viral translation initiation, with TORC1 signaling that modulates protein synthesis. A few terms touch on transcription, splicing, and polyadenylation, but the core signal points to translational control rather than transcriptional processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0075525","count":4}]},{"hash":"1970084301286019054","title":"Mesodermal and Craniofacial Development","description":"The cluster\u2019s GO terms converge on embryonic patterning and morphogenesis, including mesoderm formation, somite axis specification, heart/ventricular septum morphogenesis, and craniofacial (roof of mouth) development, with transcriptional regulation indicating coordinated gene expression programs.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043388","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0060412","count":2}]},{"hash":"360621295957562159","title":"Hair Follicle Morphogenesis and Mechanotransduction","description":"This cluster centers on hair follicle morphogenesis with supporting signals for mechanotransduction and cell adhesion. Key terms include hair follicle morphogenesis, cellular response to mechanical stimulus, regulation of focal adhesion assembly, and ephrin receptor signaling, suggesting coordinated remodeling during follicle formation. Additional terms on VEGF signaling and angiogenesis indicate concurrent vascular changes often accompanying follicle development. Overall, the functions point to skin/hair follicle development aided by mechanotransduction and vascular signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0051965","count":3},{"id":"GO:1900747","count":3},{"id":"GO:0000055","count":2}]},{"hash":"1174617557550688854","title":"Histone acetylation and chromatin regulation","description":"Based on the top GO terms, the cluster is centered on histone modification (histone H3/H4 acetylation) and chromatin-based control of gene expression, with supporting signals from cell division and RNA processing/export that commonly accompany nuclear regulatory processes. The mix suggests a cohesive theme around chromatin state influencing transcription and cell cycle. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0043966","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0000920","count":3},{"id":"GO:0036265","count":3}]},{"hash":"2051586221528435864","title":"Unknown","description":"The top GO terms span endocytosis, cell-matrix adhesion, development, and ubiquitin-dependent protein turnover with no clear shared function. While some terms touch on membrane trafficking and protein degradation, others describe developmental processes, making it hard to assign a cohesive label. Therefore, the cluster is best described as Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090118","count":2},{"id":"GO:0021517","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0097211","count":2},{"id":"GO:2000312","count":2}]},{"hash":"1870974479673742222","title":"NF-\u03baB Regulation and Ubiquitin Signaling","description":"This cluster is dominated by GO terms tied to canonical NF-\u03baB signal transduction regulation, including I\u03baB phosphorylation and ubiquitin-related processes (K63-linked), along with apoptosis regulation and immune processes like V(D)J recombination. These collectively point to a module centered on NF-\u03baB pathway control via ubiquitin signaling and its impact on cell survival and immune function; a lone term about X chromosome dosage compensation seems less connected and may reflect annotation noise.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0009048","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0033151","count":2}]},{"hash":"1305818184107526281","title":"Glycinergic Synaptic Transmission and Neurotransmitter Uptake","description":"This cluster centers on neural signaling, with strong representation of glycinergic synaptic transmission and related transport (glycine import, regulation of glycinergic transmission, taurine transport) as well as neurotransmitter uptake pathways (serotonin and dopamine uptake). Some development terms (thalamus/striatum/adenohypophysis) appear, but the core signal points to glycinergic synaptic function and general neurotransmitter handling, suggesting these proteins work together in glycinergic signaling and associated transport processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021794","count":8},{"id":"GO:0021756","count":6},{"id":"GO:0060012","count":4},{"id":"GO:0036233","count":4},{"id":"GO:0015734","count":4}]},{"hash":"2083098258597314244","title":"Bone formation and vascular remodeling with sensory signaling","description":"This cluster features bone-related terms (negative regulation of BMP signaling, ossification) alongside vascular development (blood vessel endothelial cell delamination) and signaling components (calcium transport, vasopressin secretion). Additional terms touching sensory perception (pain, temperature) and inflammatory signaling suggest a broader theme of skeletal/vascular development coupled with hormonal and sensory signals. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030514","count":3},{"id":"GO:0001503","count":3},{"id":"GO:1904659","count":2},{"id":"GO:0050968","count":2},{"id":"GO:0030103","count":2}]},{"hash":"1768286075886625235","title":"RNA processing and ribosome maturation","description":"The top terms are dominated by maturation of rRNA transcripts (5.8S and LSU) and spliceosomal snRNP assembly, indicating a core RNA processing and ribosome biogenesis function. While there are also signals for DNA replication, mitotic cohesion, and vesicle trafficking, the strongest and most cohesive signal centers on RNA maturation processes, suggesting this cluster primarily comprises RNA-processing factors with supportive roles in cell cycle and trafficking pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031954","count":2},{"id":"GO:1904263","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0000466","count":2}]},{"hash":"458960966647732635","title":"ER-Golgi trafficking and TORC1 signaling","description":"Proteins in this cluster prominently map to vesicle transport between the ER and Golgi (anterograde and retrograde), suggesting a core role in membrane trafficking. The presence of TORC1 signaling and nutrient response terms points to a connection between trafficking and nutrient-driven growth regulation. While chromatin organization and mRNA transport appear in the mix, the dominant theme aligns with ER-Golgi trafficking coordinating with growth signaling. Overall, the cluster seems best described by ER-Golgi trafficking coupled to nutrient signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0031497","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0007584","count":5}]},{"hash":"1286661984514757410","title":"Blood and immune system development","description":"These terms cluster around hematopoietic/immune development and related vascular processes: megakaryocyte development, platelet aggregation, hematopoietic stem cell migration, adaptive immune response, complement activation, and angiogenesis. The inclusion of cell adhesion and embryonic morphogenesis terms suggests a broader developmental context, but the strongest signal points to blood/immune system formation and vascular remodeling during development.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035855","count":5},{"id":"GO:0070527","count":4},{"id":"GO:0048070","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0007155","count":4}]},{"hash":"663121778889446080","title":"Central metabolism and redox balance","description":"The proteins cluster around core energy production and redox regulation: glycolysis, the TCA cycle, 2-oxoglutarate and leucine catabolic pathways feed into energy metabolism; glutathione metabolism and protein glutathionylation indicate redox control, while accompanying processes like translation and vacuolar acidification suggest a housekeeping module coordinating metabolism and ion/protein homeostasis.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006103","count":3},{"id":"GO:0006749","count":3},{"id":"GO:0006814","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0045454","count":2}]},{"hash":"725182834134990790","title":"Immune signaling and cytokine responses","description":"The top GO terms point to signaling pathways involved in immune activation and cytokine responses, including T cell receptor signaling, GM-CSF/stimulus responses, and ERK/calcium signaling downstream of immune receptors. Some terms related to metabolic stress appear but likely reflect broader signaling cross-talk; overall the cluster seems centered on immune-related signal transduction.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034198","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0071226","count":5}]},{"hash":"79398314955123859","title":"Splicing Regulation and Translation Initiation","description":"This cluster is dominated by GO terms for regulating mRNA splicing via the spliceosome (positive and negative regulation), ncRNA-mediated gene silencing, and multiple facets of translation initiation and reinitiation (including IRES-dependent and viral contexts), as well as formation of the translation preinitiation complex. The shared theme is RNA processing and translational control, with a possible developmental expression signal (blastocyst formation). Overall, the terms cohere around RNA splicing regulation coupled with initiation/reinitiation of translation.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0075525","count":6},{"id":"GO:0002188","count":6}]},{"hash":"870803016055524659","title":"Sensory Perception and Membrane Potential Regulation","description":"The cluster includes GO terms for multiple sensory modalities (pain, touch, smell) and temperature-responsive processes, along with ion transport and membrane potential regulation (potassium transport, membrane repolarization, regulation of membrane potential, cGMP signaling). This combination suggests a common theme of sensory signaling tied to neuronal/excitability functions, with contributions from autonomic processes like secretion. Thus a label centered on sensory perception and membrane dynamics best captures the cluster.","confidence":"Medium","size":17,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071805","count":3},{"id":"GO:0098914","count":3}]},{"hash":"134753164865281904","title":"Metal ion homeostasis and detoxification","description":"The top GO terms are dominated by metal ion handling: detoxification of cadmium and zinc, zinc and cobalt ion homeostasis, zinc/b iron ion transport, and intracellular zinc homeostasis. These strongly point to a core function in managing intracellular metal levels and detoxification, with other terms (cell division, IL-4 response) being less central. Confidence: High","confidence":"","size":17,"edges":7,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071353","count":4},{"id":"GO:0098849","count":4},{"id":"GO:0061090","count":3},{"id":"GO:0010312","count":3}]},{"hash":"1412557372435080119","title":"Translational Initiation and Reinitiation","description":"The cluster is dominated by GO terms about initiation and reinitiation of translation (formation of the preinitiation complex, regulation of initiation, IRES- and viral-associated initiation/reinitiation), suggesting a core theme around starting and resuming protein synthesis. A couple of non-translation terms appear, but they do not override the central translational theme.","confidence":"Medium","size":17,"edges":45,"triangles":25,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0008363","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0002188","count":3}]},{"hash":"484201262336340982","title":"Developmental signaling and neural development","description":"The top terms point to Hedgehog (Smoothened) and Roundabout signaling, nervous system and brain development, kidney and bone formation, ERK signaling, and immune signaling, suggesting these proteins participate in diverse developmental signaling pathways and neural development rather than a single specific function.","confidence":"Medium","size":17,"edges":103,"triangles":286,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":11},{"id":"GO:0035385","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0050852","count":11},{"id":"GO:0001822","count":11}]},{"hash":"328961756163273713","title":"Neuroretinal development and synapse assembly","description":"The cluster centers on neural and eye development, with retina development, embryonic eye morphogenesis, and synapse-related terms (inhibitory synapse assembly, terminal button organization), indicating neural wiring in the eye. Transcription by RNA polymerase II provides a general transcriptional context, while APP metabolism and lipid catabolism may reflect neuronal metabolism in development. Overall, it suggests neuroretinal development and synapse formation as the theme.","confidence":"High","size":17,"edges":133,"triangles":636,"max_degree":16,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0002076","count":8},{"id":"GO:0002087","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0006366","count":8},{"id":"GO:1904862","count":6}]},{"hash":"930672828747662038","title":"Embryonic organogenesis","description":"The most frequent GO terms describe development and morphogenesis across multiple organs (heart, hindlimb, eye, placenta, prostate, habenula, outflow tract), suggesting a shared role in embryonic organ formation. A few terms refer to transcriptional regulation, which is common in development but does not point to a single tissue; overall, the cluster reflects embryonic organogenesis.","confidence":"High","size":17,"edges":61,"triangles":70,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0035116","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0060527","count":7}]},{"hash":"1634335191846481572","title":"Developmental signaling and organogenesis","description":"The cluster is dominated by terms tied to development and tissue formation, especially muscle development (myoblast fusion, cardiac muscle cell proliferation) and organogenesis (thyroid gland development, labyrinthine layer development). It also includes signaling-related terms (calcium-mediated signaling, Hedgehog/Smoothened pathway regulation, growth hormone receptor signaling) and a cell-cycle/process term (centrosome duplication), suggesting a broad role in developmental signaling and differentiation rather than a single pathway. Overall, these proteins appear to participate in developmental processes and organ formation. ","confidence":"Medium","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060711","count":17},{"id":"GO:0007520","count":17},{"id":"GO:0060045","count":17},{"id":"GO:0016242","count":17},{"id":"GO:0030878","count":17}]},{"hash":"1827398096990042126","title":"Mitotic spindle assembly and microtubule dynamics","description":"The top GO terms collectively point to microtubule-based organization and dynamics, covering minus- and plus-end motor\u2013driven transport, spindle assembly, chromosome alignment, and cytokinetic ring formation, with plant-specific notes on chloroplast movement and root development. This suggests a cluster of proteins coordinating microtubule cytoskeleton remodeling during mitosis and related intracellular transport in plants.","confidence":"High","size":17,"edges":129,"triangles":587,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0031534","count":14},{"id":"GO:0072383","count":14},{"id":"GO:0090307","count":14},{"id":"GO:0048364","count":14},{"id":"GO:0007080","count":14}]},{"hash":"524809713388204787","title":"Ribosome biogenesis and translation with TOR signaling and proteostasis","description":"This cluster\u2019s top GO terms center on ribosome assembly and translation (formation of translation preinitiation complex, SSU rRNA maturation, ribosome biogenesis, translation reinitiation) along with TORC1 signaling and ubiquitin-dependent proteolysis, indicating coordinated control of protein synthesis and turnover. The inclusion of ER-Golgi vesicle transport and GTPase activity regulation suggests connectivity to secretory pathway trafficking that can influence or reflect proteostasis and growth signaling. Overall, a coherent theme of ribosome biogenesis/translation coupled with proteostasis and trafficking.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0043547","count":3}]},{"hash":"309500799372003537","title":"Immune-cell transcription and chromatin remodeling","description":"Top GO terms show a mix of transcriptional regulation and chromatin modification (DNA-templated transcription, histone methylation, chromatin remodeling) together with immune-related processes (dendritic cell differentiation, B cell receptor signaling, neutrophil clearance). This combination points to a group of proteins involved in controlling gene expression in immune cells, rather than a single pathway, supporting a label centered on immune-cell transcriptional regulation and chromatin dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001200","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0010452","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0043044","count":3}]},{"hash":"1885183859569266995","title":"Heart and muscle development signaling","description":"This cluster is dominated by GO terms related to embryonic development of heart and muscle: heart development, myoblast fusion, and convergent extension, plus associated signaling pathways (ERK cascade, PDGF/VEGF receptor signaling) that drive cell proliferation, differentiation, and morphogenesis. A outlier term about defense response is present but the core pattern points to developmental processes governing cardiac and skeletal muscle formation and their signaling regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0033138","count":5},{"id":"GO:0007520","count":4}]},{"hash":"873373361413690870","title":"RNA processing and translation regulation","description":"This cluster centers on translation-related processes (initiation, reinitiation, ribosome biogenesis) and RNA processing (mRNA export, splicing regulation), suggesting coordinated regulation of gene expression at both RNA metabolism and protein synthesis stages.","confidence":"High","size":17,"edges":68,"triangles":151,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0006417","count":2}]},{"hash":"224394273242979509","title":"Neuronal cytoskeleton remodeling and stress signaling","description":"The cluster is driven by GO terms related to dendritic spine morphogenesis, positive regulation of synapse structural plasticity, regulation of Rho signaling, and protein localization to adherens junctions, all pointing to cytoskeletal dynamics and synaptic remodeling. Associated terms like regulation of the JNK cascade and osmotic stress response further suggest stress-activated signaling. Although there are some cell cycle/centrosome localization terms, the dominant pattern centers on neural cytoskeleton dynamics and synaptic regulation, with a nod to stress signaling and cell junction organization (including vocalization behavior as a neural phenotype). Overall, this supports a cohesive theme of neuronal cytoskeleton remodeling and stress-responsive signaling. ","confidence":"Medium","size":17,"edges":13,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":2},{"id":"GO:0007084","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0051660","count":2},{"id":"GO:0060997","count":2}]},{"hash":"906281159574259655","title":"mRNA Splicing and Translation Initiation","description":"The top GO terms indicate spliceosome-mediated mRNA processing (cis splicing, processome assembly, splicing regulation) and formation/assembly of translation initiation complexes (eIF4F, preinitiation complex, translation reinitiation). Together, this cluster appears to center on RNA processing via splicing and the initiation of translation.","confidence":"High","size":17,"edges":17,"triangles":10,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0097010","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0034462","count":6}]},{"hash":"2082201635442536152","title":"Glutamate receptor clustering and trafficking","description":"The terms show emphasis on NMDA receptor clustering and AMPA receptor clustering, pointing to synaptic receptor organization and trafficking. Other GO terms also touch on protein localization/export and cytoskeletal remodeling, which can relate to positioning and assembly at synapses. Overall, the common theme is regulation of receptor localization and synaptic organization, with some additional trafficking processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043407","count":2},{"id":"GO:0030968","count":2},{"id":"GO:1900182","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0050714","count":2}]},{"hash":"1083867186474769740","title":"ER-Golgi Secretory Trafficking","description":"The set is dominated by GO terms for COPI-coated vesicles, ER exit and retention, and vesicle budding, pointing to a core secretory pathway module involved in ER-to-Golgi transport and protein processing, with downstream ties to neuropeptide signaling and reproductive-related processes.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":2},{"id":"GO:0006624","count":1},{"id":"GO:0048205","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0006621","count":1}]},{"hash":"240821530528130123","title":"Transmembrane ion and nutrient transporters","description":"The top GO terms converge on transmembrane transport of ions (potassium, sodium, nitrite, nitrate, phosphate) and small molecules (xenobiotics, vitamins), plus a vesicular transporter function for loading neurotransmitters. This pattern strongly suggests a cluster of membrane transporter proteins that mediate ion and nutrient movement across membranes, including vesicular transporters involved in neurotransmitter packaging.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0035435","count":3}]},{"hash":"910730140014965473","title":"Neuronal synapse formation and neurotransmission","description":"This cluster centers on presynaptic and synaptic processes, with GO terms for neurotransmitter secretion, synaptic vesicle maturation and exocytosis, synapse assembly, and short-term potentiation, along with brain development and vesicle trafficking. Although there are some nuclear-related terms (transcription, mRNA export) they likely reflect gene-expression programs supporting synaptic functions. Overall, the dominant theme is the formation and performance of neuronal synapses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0016188","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0070086","count":3},{"id":"GO:0099525","count":3}]},{"hash":"102495239370116587","title":"Amino acid catabolism and lipid metabolism","description":"The top terms cluster around catabolic processes for several amino acids (lysine, alanine, tryptophan, glutamate) and lipid-related steps (sphinganine/sphingolipid biosynthesis, fatty acid transport). Notch signaling appears but is not the dominant theme. Overall, the cluster seems enriched for metabolic pathways combining amino acid degradation with lipid/sphingolipid metabolism.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":9},{"id":"GO:0042853","count":7},{"id":"GO:0007219","count":7},{"id":"GO:0033512","count":7},{"id":"GO:0097053","count":7}]},{"hash":"690068624364690499","title":"Gene Expression Machinery and Microtubule Dynamics","description":"The top GO terms cluster around fundamental gene expression processes\u2014translation, DNA-templated transcription, and ribosomal subunit assembly\u2014indicating a core role in protein synthesis and transcription. The accompanying terms for cytoplasmic microtubule organization and neuron-related regulation suggest linked cytoskeletal dynamics, potentially in neuronal contexts. A few terms related to necroptosis or Rac signaling are present but exploratory; overall the dominant theme centers on expression machinery with cytoskeletal regulation.","confidence":"Medium","size":16,"edges":21,"triangles":21,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006351","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0070266","count":2},{"id":"GO:0006355","count":1}]},{"hash":"1861216200652240316","title":"Diverse metabolite biosynthesis","description":"The top GO terms point to multiple biosynthetic pathways\u2014biotin biosynthesis, a lysine-related biosynthetic route (obsolete), protoporphyrinogen IX biosynthesis, sphinganine (sphingolipid) biosynthesis, and oxaloacetate metabolism\u2014along with a fatty acid transport term. This pattern suggests a cluster centered on diverse metabolite production and related lipid transport, rather than a single, cohesive pathway. ","confidence":"Medium","size":16,"edges":116,"triangles":506,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009102","count":10},{"id":"GO:0019878","count":10},{"id":"GO:0006782","count":10},{"id":"GO:0019551","count":9},{"id":"GO:0006107","count":8}]},{"hash":"87379865104649281","title":"RNA Pol II Transcription Regulation in Development","description":"The cluster is dominated by GO terms for positive and negative regulation of transcription by RNA polymerase II, with supporting developmental processes (midbrain development, pancreas morphogenesis, multicellular organism growth). Some immune-related terms also appear, but the strongest signal centers on transcriptional control linked to development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0032496","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0061113","count":6},{"id":"GO:0035264","count":6}]},{"hash":"1273932801093529699","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Regulation","description":"Most terms point to ubiquitin tagging and proteasome-mediated decay (ubiquitin-dependent protein catabolic process, protein polyubiquitination, SCF-dependent pathways) and to cell-cycle control events (G1 DNA damage checkpoint signaling, spindle assembly). The remaining terms (microtubule polymerization, synapse assembly, metal stress responses) are less central but may reflect broader roles in mitosis and stress adaptation. Overall, the cluster centers on regulated protein turnover coordinating cell-cycle processes.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0000209","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0031571","count":7}]},{"hash":"1570278762360745682","title":"Actinobacterial redox and secondary metabolism","description":"The top GO terms reflect biosynthetic (antibiotic, polyhydroxybutyrate) and catabolic (acetoin, stilbene) pathways, plus mycothiol biosynthesis and detoxification, with mycothiol being a hallmark of Actinobacteria; together they suggest a theme of redox-balanced, secondary metabolism typical of actinobacterial species.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0045150","count":4},{"id":"GO:0010125","count":3}]},{"hash":"1996864114253883118","title":"GPCR\u2013PKC Signaling in Endocrine Development","description":"Top GO terms emphasize phospholipase C-activating GPCR signaling and PKC signaling, along with developmental processes for endocrine tissues (corticotropin- and somatotropin-secreting cells, seminiferous tubule and osteoblast development) and related brain barrier maturation, suggesting a cohesive theme of signaling-driven endocrine development and tissue maturation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007200","count":4},{"id":"GO:0070528","count":4},{"id":"GO:0072520","count":4},{"id":"GO:0060133","count":3},{"id":"GO:0090210","count":3}]},{"hash":"248207572283433568","title":"Potassium Ion Transport and Membrane Potential Regulation","description":"The top GO terms cluster around potassium homeostasis and electrical potential maintenance, including intracellular potassium ion homeostasis, stabilization of membrane potential, and potassium transmembrane transport (import/export and resting potential regulation). This points to a group of proteins that control K+ flux and cellular excitability, possibly including channels and transporters. A few terms (touch sensitivity, chitin-based cuticle development, and cGMP response) appear peripheral or context-dependent, but do not override the core theme centered on potassium transport and membrane potential. ","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":4},{"id":"GO:0030322","count":4},{"id":"GO:0097623","count":3},{"id":"GO:1990573","count":3},{"id":"GO:0060075","count":3}]},{"hash":"573367545426922151","title":"Ribosome Biogenesis and Translation Machinery","description":"The cluster is dominated by GO terms related to ribosome biogenesis (GO:0042254), ribosomal subunit export from the nucleus (GO:0000054), maturation of SSU-rRNA (GO:0030490), and core translation steps (initiation, termination, and ribosome assembly/disassembly). This suggests the proteins mainly function in ribosome production and protein synthesis, with a couple of outlier terms (tight junction assembly, larval cuticle development) likely reflecting multi-functional proteins or annotation noise. ","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":2},{"id":"GO:0042273","count":1},{"id":"GO:0006415","count":1},{"id":"GO:0032790","count":1},{"id":"GO:0030490","count":1}]},{"hash":"980252490990931984","title":"Unknown","description":"The GO terms are highly heterogeneous (metabolic pathways, development, tissue-specific differentiation, and stress responses) with many obsolete annotations and minimal connectivity, making it hard to define a single coherent function for the cluster.","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009097","count":4},{"id":"GO:0009791","count":4},{"id":"GO:0042594","count":3},{"id":"GO:0009854","count":3}]},{"hash":"556298406067561437","title":"Intracellular Transport and RNA Processing","description":"The cluster shows enrichment for intracellular protein transport and endosome-Golgi trafficking, along with RNA splicing, and other cytoskeletal/post-transcriptional processes (spindle assembly, cell polarity). Together these suggest a functional module centered on intracellular trafficking and post-transcriptional processing, with some virus-related terms likely reflecting host\u2013virus interactions rather than core function.  ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0051534","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1052200632959216004","title":"Neural and craniofacial development","description":"Most GO terms point to developmental processes, especially neural development (forebrain development, trochlear nerve formation, semicircular canal formation) and craniofacial/tissue differentiation (roof of mouth development, osteoblast development), with regulatory aspects (positive regulation of synapse assembly, regulation of transcription). A few terms (electron transport chain, larval cuticle development) are less connected but do not override the overall theme of developmental differentiation. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0008363","count":2},{"id":"GO:0022900","count":1},{"id":"GO:0030900","count":1}]},{"hash":"867771323365958978","title":"Mitochondrial Metabolism and Insulin Signaling","description":"This cluster is enriched for GO terms related to insulin stimulus and regulation of insulin secretion, alongside multiple mitochondrial functions such as citrate transport, membrane permeability, and membrane fission, suggesting a cohesive theme of mitochondrial energy metabolism linked to insulin signaling. Some transport terms (heme, thiosulfate) and a transcription term are ancillary, and a pregnancy term appears incidental. Overall, the dominant pattern points to mitochondrial processes governing metabolic and insulin-related responses.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061179","count":4},{"id":"GO:0032869","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0006843","count":3}]},{"hash":"1715260346048752779","title":"Glutamatergic synaptic transmission and nervous system development","description":"Based on the top GO terms, most proteins are linked to neural signaling and development: glutamatergic synaptic transmission, excitatory postsynaptic potentials, and nervous system development. Other terms like DNA replication and mesoderm formation appear as outliers or annotations breadth, but the core theme is neuronal communication and CNS development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1901621","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0008542","count":2}]},{"hash":"1245068888793744563","title":"Developmental transcription and differentiation","description":"The proteins cluster around DNA-templated transcription and several development/differentiation processes (neural crest, cardiac vascular smooth muscle, various lung cell types, uterus), suggesting a shared role in regulating developmental gene-expression programs. Some chromatin-related hints (histone H3-K9 acetylation, nucleosome density) imply an additional layer of regulation coordinating these transcriptional outputs.","confidence":"Medium","size":16,"edges":81,"triangles":176,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:2000111","count":6},{"id":"GO:0060947","count":5},{"id":"GO:0014033","count":5},{"id":"GO:0060303","count":4}]},{"hash":"2141567111032666339","title":"Developmental transcription regulation","description":"The top terms point to both positive and negative regulation of transcription by RNA Pol II, alongside development-related processes such as midbrain and pituitary development, suggesting the cluster centers on gene regulation during development. Some terms (immune response, apoptosis) are broader, but the core signal is transcriptional control connected to developmental contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0034720","count":3},{"id":"GO:0021983","count":3}]},{"hash":"2080975076735092503","title":"Proteostasis and DNA Damage Response","description":"This cluster centers on protein quality control and stress responses: ubiquitin-dependent ERAD, aggresome assembly, ER unfolded protein response, autophagosome maturation, and sumoylation point to proteostasis regulation. DNA damage-related terms (UV-damage excision repair and error-free translesion synthesis) suggest concurrent genome maintenance under stress, with a few supporting terms like protein homooligomerization and cell cycle regulation; the antibacterial peptide regulation term is a minor outlier. Overall, the proteins appear tied to protein homeostasis and DNA damage response mechanisms.","confidence":"Medium","size":16,"edges":59,"triangles":115,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0070842","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0070914","count":3},{"id":"GO:0002814","count":3}]},{"hash":"2288903760537340251","title":"Developmental Signaling and Stress Response","description":"The terms point to signaling and regulatory processes: Wnt signaling (development), transcriptional regulation by RNA polymerase II, ER unfolded protein response, hypoxia response, liver regeneration, and cell division, with supporting roles in proteolysis and detoxification. This suggests a cluster of proteins coordinating development-related signaling with cellular stress responses and regeneration, rather than a single narrow function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0016055","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0017000","count":3}]},{"hash":"569225893539815259","title":"RNA processing and translation regulation; viral lifecycle","description":"The GO terms cluster around mRNA splicing via the spliceosome (and its regulation), mRNA stability under stress, and formation of the translation preinitiation complex and translation reinitiation, indicating a cohesive role in post-transcriptional RNA processing and control of protein synthesis. The inclusion of virion assembly and host-mediated viral replication-related terms suggests a viral context, but the dominant pattern points to RNA processing and translation regulation.","confidence":"Medium","size":16,"edges":82,"triangles":221,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0001731","count":6}]},{"hash":"2230441968007312587","title":"Developmental transcription regulation via SMAD signaling","description":"Top GO terms include both positive and negative regulation of RNA polymerase II transcription, SMAD protein signal transduction, and developmental processes (midbrain development, coronary artery morphogenesis), suggesting a theme of developmental gene regulation governed by SMAD signaling. Some metabolic terms appear miscellaneous, likely due to annotation breadth, but the transcriptional regulation and developmental signals dominate. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0019285","count":3},{"id":"GO:0008203","count":3}]},{"hash":"813930990992393056","title":"TLR-Mediated Innate Immune Signaling","description":"The top GO terms point to Toll-like receptor signaling (TLR1 and TLR4 pathways), cellular response to lipopolysaccharide, and defense against bacteria, suggesting a cohesive function in innate immune recognition and signaling. Other terms like chromatin localization and transcription regulation may reflect multifunctionality or annotation noise, but the dominant signal is TLR-driven innate immunity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0060007","count":2}]},{"hash":"2129025601831285743","title":"Neuronal signaling and synaptic plasticity","description":"Most terms point to neural function: neurotransmitter secretion, regulation of long-term potentiation, and PNS myelination, along with mitochondrial calcium signaling and response to methylmercury. A few outliers touch non-neural processes (urea homeostasis, kidney development), but the dominant theme is neural communication and plasticity, with potential neuromuscular context. Confidence: Medium","confidence":"","size":16,"edges":15,"triangles":0,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045944","count":5},{"id":"GO:0097274","count":4},{"id":"GO:1900271","count":4},{"id":"GO:0022011","count":4},{"id":"GO:0072221","count":4}]},{"hash":"1849428593814601771","title":"Plant defense and xenobiotic response","description":"This cluster centers on plant chemical defense and detoxification: innate immune response, phytoalexin metabolism, responses to alkaloids and xenobiotics, and calcium-mediated signaling. Some terms like luteinization and neurotransmitter biosynthesis appear, but the dominant theme is defense signaling and xenobiotic processing in plants.","confidence":"Medium","size":16,"edges":34,"triangles":39,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001553","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0071312","count":6},{"id":"GO:0052314","count":6},{"id":"GO:0046684","count":6}]},{"hash":"2220123503803813164","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"The cluster is dominated by GO terms tied to ribosome assembly and protein synthesis: cytoplasmic translation, ribosome biogenesis, LSU rRNA maturation, tRNA modification, and export of ribosomal subunits from the nucleus. This pattern points to a cohesive role in ribosome function and translation machinery. Some peripheral terms (cell cycle, antibiotic response, cobalamin biosynthesis) are present but less central to the core theme.","confidence":"High","size":16,"edges":102,"triangles":354,"max_degree":15,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0002181","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0006400","count":3}]},{"hash":"130805006212429391","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0051835","count":2}]},{"hash":"987166925111787081","title":"Unknown","description":"The top GO terms describe a wide and unrelated set of processes (histone modification regulation, root development, photomorphogenesis/blue light response, heart and vein morphogenesis, hormone secretion, general proliferation). The terms span plant- and animal-specific biology and include obsolete annotations, with no clear shared function tying the 16 proteins together. Hence there isn\u2019t a coherent theme to name a meaningful cluster label beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000616","count":1},{"id":"GO:0051573","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0010099","count":1},{"id":"GO:1904667","count":1}]},{"hash":"509221674285263884","title":"Mitotic cell cycle and ER-Golgi trafficking","description":"The top GO terms emphasize mitosis and cell division (mitotic cell cycle, mitotic spindle assembly, cell population proliferation) together with vesicle trafficking between the ER and Golgi (retrograde Golgi-ER transport, ER-Golgi vesicle transport, COPII-coated vesicle budding). Ribosome biogenesis and multicellular growth also appear, suggesting a cluster of proliferating cells coordinating division with secretory pathway activity, possibly relevant to development including brain development. Confidence: High","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006890","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0090114","count":7},{"id":"GO:0007420","count":7}]},{"hash":"35370780302268999","title":"Cellular stress responses and DNA repair regulation","description":"The top GO terms point to responses to protein misfolding, oxidative and metal-induced stress (unfolded protein response, diamide, singlet oxygen, cadmium), hypoxia, and a regulatory connection to DNA damage repair via nonhomologous end joining. Despite one bone-related term and some obsolete entries, the dominant theme is cellular stress management coupled with genome maintenance, suggesting proteins involved in stress sensing/signaling and DNA repair regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045671","count":2},{"id":"GO:0034620","count":1},{"id":"GO:2001033","count":1},{"id":"GO:1900365","count":1},{"id":"GO:1990910","count":1}]},{"hash":"1585984655981171542","title":"Epithelial polarity and tight junction assembly","description":"The top GO terms cluster around establishing epithelial cell apical/basal polarity, basolateral membrane localization, tight junction and bicellular junction assembly, and microvillus assembly, plus related protein localization processes. This points to a shared function in organizing polarized membrane domains and junctional complexes in epithelial cells, with ancillary terms suggesting broader trafficking roles. Therefore the label focuses on epithelial polarity and junction/microvilli organization.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051835","count":3},{"id":"GO:0051660","count":3},{"id":"GO:0035023","count":3},{"id":"GO:1903361","count":3},{"id":"GO:0008285","count":3}]},{"hash":"1542562037664287788","title":"Embryonic development and patterning regulators","description":"The GO terms point to developmental processes across embryogenesis and organ formation, including left-right patterning, trophoblast and placental differentiation, pancreatic cell development, and heart-related EMT in endocardial cushion formation. Additional terms about mRNA splicing and transcriptional regulation suggest a core regulatory module that enables precise gene expression during development. This combination supports a theme of developmental patterning and lineage differentiation control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0032298","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5}]},{"hash":"1201135016762136223","title":"Unknown","description":"The top GO terms span ubiquitin-dependent protein catabolic process, skeletal muscle development, circadian rhythm, kidney tubule morphogenesis, germinal center formation, T cell differentiation, and other diverse biological processes. There is no clear, single functional theme or pathway linking these terms, and the cluster appears to cover multiple unrelated processes across different tissues, so a cohesive, specific label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:2000312","count":8},{"id":"GO:0007519","count":8},{"id":"GO:0042748","count":8},{"id":"GO:0072156","count":8}]},{"hash":"65021872776224267","title":"Developmental Morphogenesis and Patterning","description":"The GO terms point primarily to embryonic and organ development and morphogenesis (heart development, spinal cord development, leg morphogenesis, left-right pattern formation, pancreatic cell development, placental development), with microtubule-based movement and spindle assembly reflecting basic cellular processes that accompany tissue formation. The coherent theme is developmental patterning and morphogenesis across different tissues, so the label Developmental Morphogenesis and Patterning captures the cluster well.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007018","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007480","count":2},{"id":"GO:0021510","count":2}]},{"hash":"1983216576643817511","title":"Mitochondrial transport and membrane dynamics","description":"The top GO terms point to transport of diverse metabolites across mitochondrial membranes (citrate, thiosulfate, heme, thiamine pyrophosphate, CoA) and processes regulating mitochondrial membrane permeability and fission, indicating a coherent theme of mitochondrial transporters and membrane remodeling. Phosphorylation is broad and one outlier term exists, but the dominant signal supports a mitochondrial transport/dynamics cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0097274","count":1},{"id":"GO:0006843","count":1},{"id":"GO:0015709","count":1},{"id":"GO:0015886","count":1}]},{"hash":"1668280744386812473","title":"Central metabolism and redox homeostasis","description":"This cluster centers on core metabolic and energy-related processes, including glycolysis, NAD+ biosynthesis, redox/homeostasis, and mitochondrial transport, with phosphorylation as a common regulatory layer. The xenobiotic response and tRNA wobble modification appear less directly connected, making metabolism/redox the most representative theme.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0009435","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045454","count":2}]},{"hash":"497393446034004054","title":"Cholesterol Homeostasis and Lipoprotein Assembly","description":"The terms cluster around cholesterol storage, homeostasis, and efflux, along with very-low-density lipoprotein particle assembly and related lipid-modification processes (palmitoylation, octanoylation) and macrophage foam cell differentiation. This pattern strongly suggests a group dedicated to cholesterol management, lipid transport, and lipoprotein biogenesis, with Hedgehog-related signaling components and APP processing appearing as related but secondary connections.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010878","count":1},{"id":"GO:0042121","count":1},{"id":"GO:0034379","count":1},{"id":"GO:0042986","count":1},{"id":"GO:0007224","count":1}]},{"hash":"448564236369673674","title":"Gene expression and RNA processing","description":"This cluster is dominated by GO terms for translation, ribosome biogenesis, transcription termination, and mRNA silencing, indicating a coherent module of RNA metabolism and gene expression machinery; the incidental terms about viral manipulation or cell proliferation are secondary.","confidence":"Medium","size":15,"edges":103,"triangles":430,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0006353","count":2},{"id":"GO:0009047","count":2}]},{"hash":"1173777556749758710","title":"Neural signaling and synaptic transmission","description":"The top GO terms cluster around nerve impulse propagation and synaptic communication (action potential, membrane depolarization, postsynaptic membrane organization, dopaminergic synaptic transmission, sensory processing), with notes of optic nerve morphogenesis and related neural functions. This suggests proteins involved in neural signaling and synaptic activity, rather than non-neural processes, though a few terms are broader or development-related. Overall, the theme is neural signaling/synaptic transmission.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0001941","count":2},{"id":"GO:2001226","count":2},{"id":"GO:0050893","count":2}]},{"hash":"1840689617553026700","title":"Membrane Transporters for Ions and Metabolites","description":"The top GO terms are dominated by various membrane transport activities, including ion transport (nitrate, phosphate, potassium), sugar and vitamin transport (trehalose, fructose, sialic acid, fucose, vitamin), as well as neurotransmitter loading into synaptic vesicles. This pattern points to a cluster of proteins functioning primarily as membrane transporters governing ion and metabolite movement, with one vesicle-loading example. Therefore, a concise, representative label is \u201cMembrane Transporters for Ions and Metabolites.\u201d","confidence":"High","size":15,"edges":39,"triangles":41,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0070715","count":4},{"id":"GO:0006817","count":4},{"id":"GO:0006004","count":4}]},{"hash":"2154780826100554919","title":"Renal Transport and Excretion","description":"Reasoning: The top GO terms cluster around secretory transport (Golgi to plasma membrane), renal handling (renal protein absorption, nephrocyte filtration) and excretion, with additional signaling and metabolic terms. Taken together, the dominant theme is transport and excretion functions relevant to renal and neuroendocrine contexts, hence the label.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":1},{"id":"GO:0015889","count":1},{"id":"GO:0007588","count":1},{"id":"GO:0097017","count":1},{"id":"GO:0097206","count":1}]},{"hash":"545319011978065205","title":"DNA replication and protein quality control","description":"The dominant GO terms center on DNA replication and biosynthesis (DNA replication, leading strand elongation, DNA biosynthetic process, error-free translesion synthesis), while a strong subset relates to proteostasis and stress responses (ER unfolded protein response, autophagosome maturation, aggresome assembly, chaperone-related refolding). This suggests a cluster where DNA replication processes are linked with protein quality-control and autophagy-related pathways, reflecting coordination between genome duplication and cellular stress management. ","confidence":"Medium","size":15,"edges":78,"triangles":221,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0051260","count":6},{"id":"GO:0071897","count":6},{"id":"GO:0030968","count":5},{"id":"GO:0097352","count":5}]},{"hash":"1766977308326076388","title":"Embryonic heart and sensory organ development","description":"The top GO terms point to developmental processes across multiple organs, especially heart development (embryonic heart tube formation, sinoatrial node differentiation, circadian regulation of heart rate) and sensory organs (auditory receptor cell fate, neural retina development, neurogenesis). Additional morphogenesis terms (lung vasculature development, S-shaped body morphogenesis) support a broader embryonic organogenesis theme with a cardiac\u2013sensory focus. This makes a coherent, specific cluster label. ","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042668","count":13},{"id":"GO:0003144","count":13},{"id":"GO:0003407","count":13},{"id":"GO:0060426","count":13},{"id":"GO:0072050","count":13}]},{"hash":"1930058964272504521","title":"Embryonic Organ Development and Morphogenesis","description":"This cluster centers on morphogenetic and developmental processes across multiple tissues (eye, pancreas, lung, bone, gonads), with accompanying transcriptional regulation terms, indicating a broad developmental program rather than a single tissue-specific function.","confidence":"High","size":15,"edges":80,"triangles":198,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060441","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0031018","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0048048","count":7}]},{"hash":"543617139971759908","title":"ER quality control and proteostasis","description":"The GO terms cluster around endoplasmic reticulum\u2013associated degradation (ERAD), unfolded protein response (UPR), proteasomal catabolism, autophagosome maturation, and aggresome formation, all core components of protein quality control and proteostasis in the ER and cytosol. Some nuclear processes appear, but the dominant signal is ER stress\u2013related degradation and folding management.","confidence":"High","size":15,"edges":84,"triangles":255,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0030968","count":2},{"id":"GO:0097352","count":2}]},{"hash":"1327121221377886820","title":"Innate immune defense regulators","description":"This cluster is enriched for innate immune defense terms, including responses to lipopolysaccharide, fungi, and Gram-positive bacteria, as well as neutrophil activity and leukocyte trafficking, suggesting a core role in regulating innate immune responses. Transcriptional regulation terms are present but seem secondary to the defense-focused functions.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0050832","count":5}]},{"hash":"319897339040383392","title":"Cell Division and Development","description":"The top GO terms are dominated by core cell cycle activities (DNA replication, mitotic sister chromatid separation, cell division), indicating a primary association with proliferation. Additional terms cover developmental processes (vasculogenesis, amelogenesis, oocyte morphogenesis), suggesting that these proteins also participate in developmental contexts. Other terms related to migration and metabolic responses are present but less central, so the unifying theme appears to be cell division tied to developmental processes rather than a single specialized pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051306","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006929","count":2},{"id":"GO:1903238","count":2}]},{"hash":"490945718616424915","title":"RNA splicing and translation initiation machinery","description":"The terms cluster around mRNA splicing via the spliceosome and small-subunit processome assembly, together with several steps in forming translation initiation complexes and enabling translation reinitiation (including eIF4F complex assembly and preinitiation complex formation). This points to a shared theme of RNA processing events tied to the assembly/activation of the translation machinery, reflecting post-transcriptional regulation that links splicing with protein synthesis.","confidence":"High","size":15,"edges":51,"triangles":75,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0045292","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0097010","count":11}]},{"hash":"1001865881271127837","title":"Terpenoid and cholesterol biosynthesis","description":"The top GO terms cluster around the biosynthesis of terpenoids and related lipids (geranyl, farnesyl, and geranylgeranyl diphosphate biosynthetic processes, monoterpene biosynthesis) and cholesterol/quinone biosynthesis, indicating involvement in isoprenoid lipid production. Some terms like RNA-templated DNA biosynthesis and protein transport are less cohesive with this theme, so the dominant signal points to terpenoid/isoprenoid and cholesterol biosynthesis. Therefore, a Terpenoid and cholesterol biosynthesis label best fits the cluster.","confidence":"High","size":15,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033384","count":3},{"id":"GO:0006695","count":3},{"id":"GO:0033386","count":3},{"id":"GO:0045337","count":3},{"id":"GO:0043693","count":3}]},{"hash":"1584359184425913213","title":"Unknown","description":"The proteins are annotated with a highly diverse set of GO terms\u2014metal ion transport, GPCR signaling, GTPase regulation, energy metabolism, development, and cardiovascular/muscle processes\u2014without a unifying function that clearly ties them together. A single, reliable label cannot be assigned from these terms alone.","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071577","count":3},{"id":"GO:0070574","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0010579","count":3},{"id":"GO:0008283","count":3}]},{"hash":"540952634947369584","title":"Ion Transport and Membrane Potential Regulation","description":"The top GO terms indicate a strong emphasis on membrane transport and ion homeostasis, especially potassium ion transmembrane transport, membrane hyperpolarization, and regulation of voltage-gated chloride channels. Additional terms relate to transport across membranes (taurine, molybdate, bile acids, ceramide) and translation-related processes appear to be secondary or incidental. Overall, the dominant signal is membrane transport and ion regulation, with translation terms likely reflecting broader multifunctionality or annotation noise.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0060081","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0099040","count":1}]},{"hash":"1363569221334693004","title":"Innate immunity and developmental signaling","description":"The top terms reveal a blend of innate immune responses (innate immune response; defense against Gram-positive bacteria) with major developmental signaling pathways (hippo signaling; positive regulation of canonical Wnt signaling) and differentiation processes (keratinocyte differentiation, myoblast fusion), plus apoptosis and lipid signaling. This suggests the cluster centers on coordinating immune defenses with tissue development/remodeling rather than a single narrow function.","confidence":"Medium","size":15,"edges":28,"triangles":20,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035329","count":12},{"id":"GO:0060044","count":12},{"id":"GO:0090263","count":12},{"id":"GO:0050830","count":12},{"id":"GO:0030216","count":12}]},{"hash":"8754217968980874","title":"Neurodevelopment and Ephrin Signaling","description":"The cluster is strongly characterized by GO terms focused on neuronal development and forebrain development, along with ephrin receptor signaling, which together point to neural development and signaling pathways. Additional terms like calcium-mediated signaling and actin cytoskeleton reorganization support roles in neuronal morphology and signaling dynamics, reinforcing a cohesive theme centered on neurodevelopment and ephrin-mediated communication.","confidence":"High","size":15,"edges":68,"triangles":140,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032435","count":13},{"id":"GO:0048666","count":13},{"id":"GO:0030900","count":9},{"id":"GO:0048013","count":9},{"id":"GO:0031532","count":9}]},{"hash":"589529603417531880","title":"G0 to G1 Cell Cycle Entry and Kinase Signaling","description":"These proteins show a clear enrichment for cell cycle and signaling-related GO terms: negative regulation of G0 to G1 transition, mitotic cell cycle, and positive regulation of serine/threonine kinase activity and autophosphorylation, along with GTPase activity. This points to a theme of signaling-driven control of cell-cycle entry and progression, with kinase activity modulation as a core mechanism. Peripheral terms like cellular response to hypoxia and mRNA transport may reflect broader regulatory contexts but do not override the central cell-cycle/regulatory pattern.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070317","count":4},{"id":"GO:0071902","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1169095170141019187","title":"Ribosome Biogenesis and Translation Initiation","description":"The top GO terms are dominated by translation-related processes (formation of translation preinitiation complex, translation, translation reinitiation) and ribosomal large subunit biogenesis, indicating a cluster of proteins involved in ribosome assembly and translation initiation. Some splicing and retinal development terms appear but do not outweigh the translation/RNA-processing signal, suggesting core function in protein synthesis machinery with some annotation noise.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0002188","count":3}]},{"hash":"101327207767248062","title":"Embryonic development and tissue differentiation","description":"The proteins show enrichment across developmental processes in several tissues\u2014neural tube closure (neural development), hair follicle development and its regulation, and osteoblast differentiation\u2014with supporting terms like cell-matrix adhesion and neuronal signaling, suggesting a shared role in coordinating embryonic tissue differentiation rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0045071","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0001954","count":2}]},{"hash":"1613516641085971760","title":"Ion Signaling and Cytoskeletal Dynamics","description":"This cluster centers on signaling events at the cell membrane involving ions (calcium release, sodium transport, depolarization) and neurotransmitter secretion (GABA), together with cytoskeletal remodeling (actin bundle assembly) and related processes like cell migration and polarity. While some terms are broader (mRNA processing, ubiquitination), the dominant themes are membrane-associated signaling, ion flux, and cytoskeletal organization, which together suggest a cohesive functional thread around how cells coordinate signaling with structural changes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0016477","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0014051","count":2}]},{"hash":"1819500167224523150","title":"Sarcomere assembly and calcium-regulated muscle contraction","description":"The top GO terms cluster around sarcomere organization, actin crosslink formation, and calcium signaling that regulates muscle contraction (including regulation of calcium release and RyR channel activity). This points to a cohesive theme of cytoskeletal (actin) organization within sarcomeres coupled to calcium-dependent contraction. Some terms related to fungal reproduction appear but do not define the core function of the cluster; the dominant signal is muscle-contraction\u2013related cytoskeleton dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0014809","count":2},{"id":"GO:0014894","count":2}]},{"hash":"340092823562157491","title":"Developmental cell migration and cytoskeleton regulation","description":"The cluster shows strong enrichment for actin cytoskeleton organization and cell migration, plus positive regulation of GTPase activity and cell adhesion molecule production, all pointing to cytoskeleton-driven motility. Developmental signals such as cranial skeletal system development, midbrain dopaminergic neuron differentiation, and renal vesicle formation indicate these processes occur across diverse tissues. Some terms relate to chromatin remodeling and cell cycle regulation, but the core theme remains cytoskeleton-mediated development and movement.","confidence":"High","size":15,"edges":25,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0043547","count":4},{"id":"GO:1904888","count":4},{"id":"GO:0060355","count":3},{"id":"GO:0030036","count":3}]},{"hash":"498243524882911816","title":"Synaptic development and myelination","description":"Most of the top GO terms pertain to synapse biology\u2014positive regulation of synapse assembly, synapse organization, and protein localization to the synapse\u2014as well as myelination and axonal fasciculation, indicating a neural development theme focused on forming and insulating synapses. A few terms (spermatid nucleus differentiation, ectopic germ cell programmed cell death, proteolysis) are unrelated to neurons and likely reflect broader protein roles or annotation noise, but do not dominate the set. Therefore a concise label capturing synaptic development and myelination best represents the cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0007289","count":2}]},{"hash":"1467956005437124089","title":"Lipid metabolism and lipoprotein remodeling","description":"The enriched GO terms point to triglyceride biosynthesis and storage, lipid digestion, and remodeling of HDL and very-low-density lipoprotein particles, indicating a cohesive lipid-processing theme. A few terms related to cellular defense or response to toxic substances appear but do not override the core lipid-centric signals.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006968","count":3},{"id":"GO:0019432","count":3},{"id":"GO:0034375","count":3}]},{"hash":"1897911971869243392","title":"Actin Cytoskeleton Remodeling and Protrusion Formation","description":"These proteins cluster around actin dynamics: crosslinking and organization, lamellipodium/microspike assembly, polarity and cell shape regulation, and Rho signaling. The inclusion of dendritic spine morphogenesis and cell adhesion terms supports a role in actin-driven morphological changes and protrusive structures (lamellipodia, filopodia) and associated motility. Overall attribution centers on actin cytoskeleton remodeling and cell protrusions.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":3},{"id":"GO:0007015","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0007155","count":2}]},{"hash":"826564758400343012","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around developmental differentiation and tissue morphogenesis across multiple systems, including placental/trophoblast differentiation, endocrine development, EMT in heart formation, left-right patterning, pancreatic endocrine development, and cartilage morphogenesis, with some adhesion-related terms. This points to a cohesive theme of embryonic development and organogenesis rather than a single, narrow function. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4}]},{"hash":"1876073385490449132","title":"Bacterial cell wall and lipid biosynthesis","description":"The cluster shows enrichment in pathways for building the bacterial envelope: lipid A biosynthesis, teichoic and lipoteichoic acid biosynthesis, and cell wall organization, with fatty acid biosynthesis also present. The overlap with the TCA cycle term suggests coordinated primary metabolism supporting envelope biogenesis. Overall, the dominant theme is bacterial envelope biosynthesis and lipid metabolism.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0009245","count":3},{"id":"GO:0071555","count":3}]},{"hash":"1898838305012372332","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000027","count":4},{"id":"GO:0006415","count":3},{"id":"GO:0006407","count":3},{"id":"GO:0046677","count":3}]},{"hash":"27546712483095169","title":"Developmental gene regulation and signaling","description":"The top GO terms cluster around transcriptional control (DNA-templated transcription), signaling pathways (Wnt signaling), cell fate decisions (apoptosis, mitotic cell cycle), and development-related processes (multicellular development, placental/labyrinthine development). While a few terms touch on immune response or pain perception, the dominant theme is regulation of gene expression and signaling in development, making this label representative for the cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":5}]},{"hash":"1095321392884033609","title":"Neuronal signaling and survival regulation","description":"The cluster shows enrichment in neuronal development and signaling terms, including nervous system development, negative regulation of neuron apoptotic process, smoothened signaling (SHH), ROBO signaling, and MAPK pathways (ERK/JNK), as well as mechanosensitive signaling and GTPase regulation. Together these suggest a group of proteins involved in neuronal signaling, survival, and development rather than a single narrow function.","confidence":"Medium","size":14,"edges":20,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":4},{"id":"GO:0007224","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0071260","count":3}]},{"hash":"2097986825154958718","title":"Hormone Biosynthesis and Reproductive Development","description":"Based on the enrichment of GO terms related to cortisol, prostaglandin, retinoic acid, and vitamin D metabolism, as well as tissues such as uterus and mammary gland, the cluster seems driven by hormone/retinoid/lipid metabolite biosynthesis linked to reproductive development. The presence of xenobiotic metabolism terms suggests additional metabolic flexibility but does not overshadow the hormone-development signal.","confidence":"Medium","size":14,"edges":24,"triangles":13,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090350","count":11},{"id":"GO:0042904","count":11},{"id":"GO:0010760","count":11},{"id":"GO:0017143","count":11},{"id":"GO:0060065","count":11}]},{"hash":"1523469882302116428","title":"Hormone biosynthesis and reproductive development","description":"The cluster\u2019s top GO terms center on biosynthesis of signaling molecules (retinoic acid, cortisol, prostaglandin, vitamin D) and reproductive tissue development (uterus, mammary gland), suggesting a theme of endocrine signaling and reproductive development. While xenobiotic metabolism terms appear (carbazole, organofluorine, insecticide metabolism), the dominant signal is hormone-related biosynthesis paired with development, justifying this label.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":11},{"id":"GO:0090350","count":10},{"id":"GO:0042904","count":10},{"id":"GO:0010760","count":10},{"id":"GO:0017143","count":10}]},{"hash":"2189811508738274433","title":"Multitissue Development and Organogenesis","description":"The proteins share GO terms spanning development in multiple tissues (brain, forebrain, hindlimb, cartilage, gonads, fertilization, prostate) and a general multicellular development term, indicating a broad developmental program rather than a single pathway. The inclusion of a transcriptional regulation term (negative regulation of transcription by RNA Pol II) fits with overarching gene-expression control during development.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007338","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0030900","count":5},{"id":"GO:0007626","count":5}]},{"hash":"949724666234263242","title":"Blood cell lineage differentiation","description":"The top GO terms include granulocyte differentiation, erythrocyte differentiation, and megakaryocyte differentiation, indicating a clear focus on hematopoietic lineage development. Other terms are more peripheral (metabolic or tissue-specific), but the dominant signal is blood cell formation and lineage commitment.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0045648","count":6},{"id":"GO:0045654","count":6},{"id":"GO:0030851","count":6},{"id":"GO:0043046","count":6}]},{"hash":"2095562363114028163","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome assembly, rRNA maturation, and translation, indicating these proteins mainly participate in ribosome production and protein synthesis. Some transcription-related terms are present but appear secondary to the core ribosomal function.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0006353","count":2},{"id":"GO:0031564","count":2}]},{"hash":"144814364485986521","title":"Embryonic skeletal and organ development","description":"The top GO terms cluster around developmental processes across multiple tissues, especially skeletal-related ones (osteoblast development, cartilage development, biomineral tissue development, embryonic cranial skeleton morphogenesis). Additional terms involve development of other organs (midbrain, pancreas, uterus, roof of the mouth). This suggests a theme of embryonic organogenesis with a focus on skeletal/craniofacial formation. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0030194","count":4},{"id":"GO:0031214","count":4},{"id":"GO:0002076","count":3}]},{"hash":"249604079859980065","title":"Membrane Transport and Ion Homeostasis","description":"The proteins in this cluster show enrichment for various transmembrane transport activities (fructose, sulfate, chloride, oxalate, L-aspartate) and related processes such as regulation of membrane potential and intracellular pH, as well as gastric acid secretion and sensory/reproductive functions that rely on ion flux, pointing to a unifying theme of membrane transport and ion balance.","confidence":"High","size":14,"edges":54,"triangles":95,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048240","count":6},{"id":"GO:0015755","count":4},{"id":"GO:1902358","count":4},{"id":"GO:0042391","count":4},{"id":"GO:1902476","count":4}]},{"hash":"698915762647114330","title":"ER stress\u2013triggered apoptotic signaling","description":"The cluster\u2019s top terms point to ER-stress\u2013related apoptotic signaling (intrinsic apoptotic pathway in response to ER stress) and related regulatory processes like actin cytoskeleton remodeling (barbed-end actin capping), GTPase activity regulation, and peptidyl-tyrosine phosphorylation. While there are generic terms for transcription and cell cycle, the clearest link among the terms is stress-induced apoptosis signaling and its modulation, suggesting a cohesive theme around cellular stress responses and fate decisions rather than a single, narrowly defined function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1442417875260627039","title":"Post-transcriptional RNA processing and localization","description":"The top terms cluster around RNA processing and post-transcriptional control: spliceosome-mediated splicing, mRNA export, poly(A) tail regulation, and decay pathways, plus regulatory ncRNA silencing and oskar mRNA localization. DNA replication and viral genome replication appear less central, but overall the dominant theme is RNA-level regulation and localization.","confidence":"Medium","size":14,"edges":23,"triangles":18,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0019079","count":4}]},{"hash":"311376244487544322","title":"Nuclear RNA Processing and Gene Expression Regulation","description":"Dominant terms involve spliceosome-mediated mRNA splicing and its regulation, along with RNA polymerase II transcription termination and mRNA decay, indicating a focus on nuclear RNA processing and gene-expression control. Additional terms for ribosome assembly and protein import imply coordination with ribosome biogenesis and nuclear protein trafficking, fitting a cohesive theme of nuclear RNA metabolism and expression regulation.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":11},{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0006369","count":9},{"id":"GO:0071035","count":7}]},{"hash":"838103202383129019","title":"Cytoskeleton remodeling and vesicle trafficking","description":"The top terms point to actin stress fiber assembly, Rab-mediated signaling, protein transport (including transmembrane transport), and microtubule-based movement of mitochondria, all indicative of cytoskeletal remodeling and intracellular transport. Additional terms related to cell division and muscle satellite cell migration suggest motility and proliferation contexts, but the unifying theme appears to be cytoskeleton dynamics coupled with vesicle trafficking.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043149","count":4},{"id":"GO:0050771","count":4},{"id":"GO:0032482","count":4},{"id":"GO:0000186","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1781625316561041521","title":"Transmembrane Transporters for Ions and Xenobiotics","description":"The cluster is dominated by GO terms for various transmembrane transport processes, including potassium, phosphate, nitrate, vitamin, xenobiotic, and organic cation transport, plus vesicular transport of neurotransmitters. This points to a core role in moving diverse substrates across membranes, with some representation of vesicular loading. The name captures the common function across members without being overly specific to a single substrate.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":9},{"id":"GO:0035461","count":9},{"id":"GO:0006855","count":9},{"id":"GO:0042908","count":9},{"id":"GO:0006970","count":9}]},{"hash":"421627397122508370","title":"Vertebrate organogenesis","description":"The top GO terms point to development and differentiation across multiple vertebrate tissues (forebrain, neural tube, neural crest, retina, visual perception, uterus, digestive tract) plus related structural and gene expression processes (stress fiber assembly, vascular smooth muscle differentiation, transcription by RNA polymerase II), suggesting a broad embryonic organogenesis program rather than a single pathway.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0043149","count":2},{"id":"GO:0035886","count":2},{"id":"GO:0048565","count":2}]},{"hash":"2086800164059314487","title":"TLR-NF-\u03baB Innate Immunity","description":"The cluster shows a clear bias toward innate immune signaling: TLR1 and TLR4 pathways, I-kappaB phosphorylation (NF-\u03baB activation), cellular response to LPS, and defense/antiviral responses including interferon production. These terms point to coordinated activation of TLR-driven NF-\u03baB signaling and antiviral defense rather than other cellular processes, despite a couple unrelated annotations in the mix.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007252","count":2},{"id":"GO:0060658","count":1},{"id":"GO:0060007","count":1},{"id":"GO:0034130","count":1},{"id":"GO:0060427","count":1}]},{"hash":"1131221893798684694","title":"RNA processing and translation initiation factors","description":"The cluster contains terms for translation initiation (formation of preinitiation complex, translation reinitiation, eIF4F complex assembly) and for mRNA splicing via the spliceosome (small-subunit processome assembly, regulation of alternative splicing), indicating a cohesive role in RNA metabolism bridging processing and initiation of translation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0097010","count":2}]},{"hash":"717816523116145582","title":"Organogenesis Across Tissues","description":"Top terms indicate development and differentiation across multiple organs (forebrain, cerebral cortex, prostate gland, seminiferous tubules), suggesting a shared theme of organogenesis and tissue maturation across tissues, with supporting signaling and regulatory processes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060770","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060528","count":3},{"id":"GO:0072520","count":3}]},{"hash":"1209675692498312059","title":"Neurodevelopmental Regulation and Stress Signaling","description":"Top GO terms indicate neural development (forebrain development, neural tube closure) and multicellular development, aided by DNA-templated transcription and cell cycle activity. The mix of stress-related terms (ER stress\u2013induced apoptosis, cadmium response) and immune defense hints at broader regulatory networks that couple development with stress signaling. Together, this cluster appears to center on neurodevelopmental gene regulation and associated stress responses.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0001403","count":3}]},{"hash":"1038156924376673027","title":"Redox homeostasis and oxidative stress response","description":"The cluster is dominated by GO terms about handling oxidative stress and maintaining cellular redox balance, including response to oxidative stress, cellular oxidant detoxification, hydrogen peroxide response, and redox homeostasis, along with protein modification/repair linked to redox changes. A few terms (like methylamine metabolism) appear peripheral, but the core theme is redox regulation and oxidative stress response.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0030091","count":4},{"id":"GO:0006464","count":4},{"id":"GO:0006979","count":4},{"id":"GO:0098869","count":3}]},{"hash":"710763770643188388","title":"Organelle Protein Import and Proteostasis","description":"The cluster centers on protein targeting/import into organelles (mitochondria and chloroplasts) and membrane insertion, with accompanying proteostasis processes (ER UPR, autophagosome maturation, aggresome assembly). Some outliers (leading strand elongation, obsolete mitochondrial genome maintenance) are not strongly aligned but do not dominate the set.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":5},{"id":"GO:0045037","count":3},{"id":"GO:0045039","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0000002","count":3}]},{"hash":"1291388722227781357","title":"Central Metabolism and Xenobiotic Response","description":"This cluster spans major energy pathways (glycolysis, TCA, beta-oxidation, 2-oxoglutarate metabolism), various catabolic routes (valine, phenylacetate), plus redox homeostasis and xenobiotic/antibiotic biosynthesis signals, indicating a cohesive metabolic module with detoxification-related features.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":7},{"id":"GO:0006099","count":7},{"id":"GO:0006574","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0017000","count":5}]},{"hash":"1870077893741287765","title":"Ribosome biogenesis and RNA processing","description":"The cluster shows strong enrichment for ribosome-related processes: ribosome biogenesis, cytoplasmic translation, tRNA modification, and ribosomal subunit export from the nucleus, plus spliceosome remodeling. This points to a cohesive module around ribosome assembly and RNA processing/translation. The cell cycle/division terms and stress responses (antibiotic, amino acid starvation) likely reflect coordinated regulation of these core processes. ","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0042254","count":5},{"id":"GO:1990416","count":4}]},{"hash":"1759535756040716057","title":"Lipid, vitamin, and steroid metabolite biosynthesis","description":"The terms cluster around the synthesis and metabolism of lipid- and vitamin-derived compounds (polyhydroxybutyrate, methyl-branched fatty acids, retinal/retinol/retinoic acid, and C21-steroid hormones). While there are miscellaneous pathways (tropane alkaloid, antibiotic response), the dominant signal is diverse biosynthetic metabolism of lipids, vitamins, and steroids, suggesting a broader metabolite biosynthesis cluster.","confidence":"Medium","size":13,"edges":16,"triangles":6,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":7},{"id":"GO:1902321","count":4},{"id":"GO:0009710","count":4},{"id":"GO:0042574","count":4}]},{"hash":"582355975316142799","title":"Vertebrate Developmental Differentiation Regulators","description":"This cluster centers on vertebrate development and differentiation across multiple tissues, including neural (forebrain, midbrain dopaminergic neuron differentiation, pituitary) and mesodermal (osteoblasts, cervix) lineages. The mix of tissue-development terms with regulatory processes (negative regulation of transcription by RNA polymerase II, negative Hippo signaling) and a note on endocytic recycling suggests proteins involved in controlling gene expression, growth signaling, and cellular remodeling during development.","confidence":"Medium","size":13,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0035331","count":5},{"id":"GO:1904948","count":5}]},{"hash":"293702277648702311","title":"PI3K/AKT signaling and developmental regulation","description":"This cluster centers on PI3K/AKT pathway modulation (both activation and positive regulation) and includes several development-related terms such as skin development, myoblast differentiation regulation, and synapse assembly, along with related signaling and adhesion processes (mechanical stimulus response, leukocyte tethering/rolling, and ectodomain proteolysis, plus nitric oxide biosynthesis). The mix suggests a broader signaling-regulation module tied to developmental processes across tissues rather than a single tissue-specific function.","confidence":"Medium","size":13,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045662","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0043491","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0050901","count":2}]},{"hash":"500164661417285444","title":"Craniofacial and sensory organ morphogenesis","description":"Many top GO terms describe patterning and morphogenesis of craniofacial structures (left/right pattern formation, roof of mouth development, neural crest cell migration) and skeletal/soft tissue formation (osteoblast development). Additional terms highlight development of sensory organs, including the camera-type eye, retina, and cochlea, as well as related organogenesis such as pancreas and lung morphogenesis. Together, these terms point to a cluster of proteins involved in embryonic development with a focus on craniofacial and sensory organ morphogenesis.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":5},{"id":"GO:0002076","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0043010","count":4}]},{"hash":"1837596961261712051","title":"Embryonic craniofacial and gonadal development cluster","description":"The top GO terms cluster around broad developmental processes (multicellular organism development, forebrain development, roof of mouth development) and reproductive system formation (gonad development, single fertilization, gonadal development), suggesting a theme centered on embryonic craniofacial patterning and sexual/gonadal development. A few outlier terms (cellulose catabolic process, cellular oxidant detoxification) may reflect annotation noise rather than core cluster function, but they do not outweigh the dominant developmental signal. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0030245","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0008284","count":3}]},{"hash":"249254471436278954","title":"Neurodevelopment and myelination","description":"This cluster is dominated by GO terms related to neural development, including neurogenesis, vestibular receptor cell morphogenesis, axon fasciculation of motor neurons, and myelination, as well as signaling pathways like Smoothened (Shh) that are crucial for neural patterning. While a few terms touch on broader development (e.g., urogenital system development) or immune signaling, the strongest and most consistent theme is neural development and maturation, including axon guidance and myelination.","confidence":"High","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0022008","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0060116","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0034164","count":7}]},{"hash":"2048059527661503041","title":"Cross-tissue development and immune regulation","description":"This cluster shows a mix of GO terms across several tissues and systems (skeletal muscle development, distal tubule morphogenesis, renal function, germinal center formation, T cell differentiation) plus miscellaneous processes like circadian rhythm and ubiquitin-dependent protein catabolic process. There isn\u2019t a single coherent pathway, but the common theme is development across multiple tissues with some immune-related roles.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:2000312","count":8},{"id":"GO:0007519","count":8},{"id":"GO:0042748","count":8},{"id":"GO:0072156","count":8}]},{"hash":"2157628383103870539","title":"RNA Modification Machinery","description":"The cluster's strongest signal comes from RNA modification terms (guanine-N7 methylation, rRNA modification, tRNA modification), suggesting the proteins are enriched for RNA-modifying enzymes. Other terms (antibiotic biosynthesis/response, cell-cycle regulation, mammary gland proliferation, ER stress) are more sporadic and likely represent annotation noise or context-specific roles; however, they do not override the RNA-modification theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":1},{"id":"GO:0000154","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0006400","count":1}]},{"hash":"29752406611291005","title":"Neural development and migration signaling","description":"The top GO terms cluster around neural development and cell migration (Purkinje cell migration, labyrinthine layer development), with supporting roles in Rho-mediated signaling, endosome transport regulation, and transcription/protein export processes, plus apoptosis. This suggests a coherent theme of neural development and associated signaling pathways, despite some broader terms. ","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0043627","count":3},{"id":"GO:2000641","count":3},{"id":"GO:0007266","count":3}]},{"hash":"2063774575700728074","title":"Developmental chromatin remodeling and differentiation","description":"The cluster shows enrichment for developmental processes across multiple organ systems (midbrain dopaminergic neuron differentiation, renal vesicle formation, zona limitans intrathalamica formation) along with cell-cycle and chromatin-related activities (regulation of centromeric cohesion, transcription initiation-coupled chromatin remodeling, NLS-bearing protein import into nucleus, positive regulation of GTPase activity, cell migration). This suggests a core theme of developmental regulation tied to chromatin state and cellular dynamics, rather than a single pathway, supporting a label focused on developmental regulation and chromatin remodeling.","confidence":"Medium","size":13,"edges":63,"triangles":162,"max_degree":12,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0007050","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0070602","count":6}]},{"hash":"1800741215436398368","title":"Neural development and vesicle trafficking","description":"The cluster is enriched for brain and nervous system development terms and for processes related to synaptic vesicle exocytosis and ER-Golgi vesicle transport, suggesting a shared function in neural maturation with membrane trafficking. Some other terms (mitotic cell cycle, spermatid development) are more general, but the dominant signal ties neural development to vesicle regulation.","confidence":"High","size":13,"edges":64,"triangles":158,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0031384","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0000278","count":3}]},{"hash":"2044194085003732808","title":"Organ Development and Morphogenesis Signaling","description":"The cluster is enriched for organ development terms (heart development, thymus development, branching morphogenesis in mammary gland) and signaling pathways (ephrin receptor signaling, retinoic acid response), pointing to a shared theme of organogenesis and tissue patterning. While there are additional terms reflecting broader processes like synaptic potentiation and apoptosis, the developmental signaling/morphogenesis signal dominates the cluster.","confidence":"High","size":13,"edges":6,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0007118","count":11},{"id":"GO:0048013","count":11}]},{"hash":"1571812167701549272","title":"Neural signaling and gonad development with ECM","description":"The top terms point to neural activity (excitatory postsynaptic potential, calcium import), together with gonadal development/spermatogenesis and extracellular matrix organization, plus transcription-related terms, suggesting a cluster of proteins involved in neural signaling, gonad development, and ECM remodeling. While diverse, these themes likely reflect a shared developmental and functional context rather than a single clean pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903026","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1903206","count":3},{"id":"GO:0030198","count":3},{"id":"GO:0007283","count":3}]},{"hash":"1001760078062865284","title":"Epigenetic transcription regulation in development","description":"This cluster centers on DNA-templated transcription, nucleosome assembly, and DNA methylation regulation, pointing to epigenetic control of gene expression. The presence of estrogen response and various developmental differentiation terms suggests roles in hormone-responsive transcription programs during development. The absence of edges indicates these may be broader chromatin regulators contributing to multiple developmental contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0043627","count":3},{"id":"GO:0060374","count":3},{"id":"GO:1901536","count":3},{"id":"GO:0006334","count":3}]},{"hash":"947477605680460177","title":"Neuronal signaling and sensory transduction","description":"The terms center on neural excitability and sensory processing: sodium/potassium ion transport, membrane depolarization, action potential, and transmission of nerve impulses, plus mechanosensory detection in hearing and sensory processing. The inclusion of optic nerve morphogenesis also supports a neural/visual development theme, and cocaine response aligns with neural signaling pathways. Overall, this cluster reflects neuronal signaling and sensory transduction functions.","confidence":"High","size":13,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0050910","count":7},{"id":"GO:0042220","count":6},{"id":"GO:2001226","count":6}]},{"hash":"2192803065818037195","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0006363","count":2}]},{"hash":"1656901136482713299","title":"Muscle contraction regulation across cardiac, smooth, skeletal","description":"This cluster centers on terms related to muscle contraction, muscle filament sliding, and regulation across cardiac and skeletal (striated) muscle, including ventricular morphogenesis and regulation of smooth muscle contraction. The dominant GO terms point to a shared theme of muscular contractile control across muscle types, with lipid metabolism and endocannabinoid signaling terms likely reflecting broader metabolic and signaling context rather than core clustering signals. Overall, a cohesive label focusing on contraction regulation across muscle types fits best.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:2000124","count":3},{"id":"GO:0014883","count":2},{"id":"GO:0030049","count":2},{"id":"GO:0006942","count":2}]},{"hash":"2148534076422487349","title":"mRNA processing and translation initiation","description":"The cluster includes GO terms for translation initiation and preinitiation complex formation (eIF4F complex assembly; formation of translation preinitiation complex) along with regulators of mRNA splicing via the spliceosome, pointing to a common theme of early gene expression steps from RNA processing to translation initiation. Some ribosome biogenesis terms are present, but the translation/splicing signals dominate.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0001878","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2}]},{"hash":"288800624704149250","title":"Diverse Metabolic Biosynthesis and Catabolism","description":"This cluster shows both biosynthetic processes (antibiotic, menaquinone, biotin) and catabolic/degradative processes (uracil, chlorophyll, triglyceride), plus related metabolic activities like nitrogen utilization and detoxification, suggesting a general metabolic role rather than a single pathway.","confidence":"Medium","size":13,"edges":10,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0006212","count":2},{"id":"GO:0019740","count":2}]},{"hash":"1222551884921479196","title":"K11-Linked Ubiquitination in Mitosis","description":"Several top GO terms point to ubiquitin signaling with K11 linkage and mitotic cell cycle regulation (K11-linked ubiquitination, cell division, metaphase/anaphase transition). This suggests a cohesive theme of ubiquitin-mediated control of mitosis and related protein quality/turnover\u2014more coherent than the more scattered other terms. Some peripheral terms (brain development, nutrient response, ncRNA silencing, cadmium response) appear less connected to this core function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0043653","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0007584","count":2}]},{"hash":"1040157642275381012","title":"Lipid biosynthesis and remodeling","description":"This cluster is dominated by GO terms related to lipid production and modification, including triglyceride biosynthesis, phosphatidylcholine biosynthesis/remodeling, ether lipid biosynthesis, and CDP-diacylglycerol biosynthesis. While there are a few outlier terms (e.g., interleukin-2 production, cerebellum morphogenesis, glandular epithelial maturation), the strongest signal is lipid metabolism, justifying a label focused on lipid biosynthesis and remodeling.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":3},{"id":"GO:2001246","count":2},{"id":"GO:0070970","count":2},{"id":"GO:0010143","count":2},{"id":"GO:0036151","count":2}]},{"hash":"1234127182676266184","title":"Neural development and cytoskeletal signaling","description":"The GO terms cluster around central nervous system development, chemotaxis, dopamine response, and Rho-mediated cytoskeletal dynamics, including lamellipodium morphogenesis, pointing to roles in neural development and neuron/migration-related actin remodeling. While some terms are general DNA replication/transcription, the dominant theme ties to neural development and cytoskeletal signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0045719","count":2},{"id":"GO:0045765","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1153668178657854645","title":"Ganglion development and axon guidance","description":"This cluster's dominant terms point to neural development, especially formation of facial/otic and sympathetic ganglia, ear development, and axon guidance (including commissural and axonal extension) with associated paranodal junction assembly; a subset of terms also touches on ECM disassembly and cell-matrix adhesion, consistent with tissue remodeling during neural development.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903375","count":2},{"id":"GO:0061549","count":2},{"id":"GO:0043583","count":2},{"id":"GO:0090091","count":2},{"id":"GO:0030913","count":2}]},{"hash":"65099863533774929","title":"Mitochondrial import, respiration, and apoptosis","description":"The cluster shows strong enrichment for mitochondrial-related terms: protein import into the mitochondrial matrix, electron transport chain, regulation of mitochondrial membrane permeability, and apoptotic process, indicating a coherent theme around mitochondrial energy production and apoptotic regulation. Some ancillary terms touch on translation and lipid metabolism, but the dominant pattern is mitochondria-centered functions.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0070940","count":1},{"id":"GO:0010867","count":1},{"id":"GO:1903740","count":1}]},{"hash":"441642355618833087","title":"Cyanobacterial core processes","description":"The top GO terms point to photosynthesis, energy metabolism (ATP), and fundamental gene expression (translation and LSU-rRNA maturation), along with cell division and even cyanobacterial-specific features like gas vesicle organization and cold response. Although there are no edges among proteins, the combination of photosynthetic activity, ribosome-related processes, and buoyancy-related organization suggests a cyanobacterial core-function theme rather than disparate functions. Confidence: Medium.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015979","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0009409","count":2}]},{"hash":"1861878816962488255","title":"Cardiac growth signaling and development","description":"The cluster is enriched in signals for growth and organ development, especially positive regulation of canonical Wnt signaling and Hippo pathways, plus regulation of cardiac muscle cell proliferation and AKT activation. These together point to a set of proteins governing cardiac growth and developmental signaling, with additional DNA replication/transcription terms reflecting proliferative nuclear functions; overall, a cardiac growth\u2013regulation theme is most representative.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0060045","count":3}]},{"hash":"1473215154170562308","title":"RNA processing and translation initiation","description":"Terms center on spliceosome assembly and splicing regulation, with several entries for translation initiation complex formation and translation reinitiation, suggesting a cohesive role in RNA processing and initiation of protein synthesis.","confidence":"High","size":12,"edges":26,"triangles":33,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":10},{"id":"GO:0010610","count":9},{"id":"GO:0097010","count":8},{"id":"GO:0001731","count":8}]},{"hash":"53807898363142483","title":"Mitochondrial electron transport and oxidative phosphorylation","description":"The majority of top GO terms point to mitochondrial respiration and ATP production, including oxidative phosphorylation, mitochondrial electron transport chain, electron transport coupled proton transport, and related respiration terms. A few outlier terms may reflect annotation noise, but the dominant signal is clearly mitochondrial energy metabolism.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0019411","count":1},{"id":"GO:0006119","count":1},{"id":"GO:0019646","count":1},{"id":"GO:0015990","count":1}]},{"hash":"642055632282244447","title":"Cardiac development and adrenergic signaling","description":"The Top Terms show strong representation of heart development, regulation of heart contraction by catecholamines (epinephrine/norepinephrine), and signaling pathways including ERK cascades and GPCR-to-cGMP signaling. Though some terms refer to broader developmental processes, the heart-related terms predominate, pointing to a cardiac development and adrenergic signaling cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0060658","count":2},{"id":"GO:0010759","count":2},{"id":"GO:0060427","count":2}]},{"hash":"1410328987482564645","title":"DNA replication and cell cycle machinery","description":"The cluster is driven by GO terms for DNA replication, cell cycle, pre-replicative complex assembly, and regulation of replication initiation, pointing to a nucleus-based replication module. Additional terms for ribosomal large subunit assembly and heterochromatin formation suggest coupling to chromatin/nucleolar processes, while a few vesicle trafficking and cilium-related terms may reflect annotation spillover or broader cellular coordination; overall, the dominant theme is DNA replication and cell cycle control.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0031412","count":4},{"id":"GO:0003341","count":4},{"id":"GO:1990048","count":4}]},{"hash":"929822523032000767","title":"Cell Cycle Regulation and ER Stress Response","description":"This cluster is enriched for GO terms related to cell division, regulation of the cell cycle (G2/M), and the endoplasmic reticulum unfolded protein response, suggesting a cohesive theme around cell proliferation control and ER stress signaling. While a few terms reference biosynthesis and tissue-specific proliferation, the dominant pattern points to cell cycle control.","confidence":"Medium","size":12,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0000411","count":2}]},{"hash":"800872400983442644","title":"Developmental Gene Regulation","description":"The top GO terms indicate broad developmental roles\u2014embryonic structures (primitive streak formation; multicellular growth) and organ/nervous system development (forebrain, midbrain, peripheral nervous system, skeletal muscle). Additionally, enrichment for transcriptional regulation by RNA polymerase II (both negative and positive) suggests these proteins coordinate gene expression during development. Together, they point to a cluster of factors governing developmental programs, especially neural development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":5},{"id":"GO:0048935","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0007626","count":4}]},{"hash":"593183925106589572","title":"Innate Immune Defense and Leukocyte Recruitment","description":"Top terms cluster around innate immune defense and leukocyte recruitment (defense responses to fungus and Gram-positive bacteria, neutrophil-mediated killing, and leukocyte tethering/rolling). While some terms touch on other cellular processes, the dominant pattern supports labeling this cluster as innate immune response and leukocyte recruitment.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007586","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0050832","count":2}]},{"hash":"1811754404084662389","title":"Spliceosome and Translation Initiation Machinery","description":"This cluster is enriched for GO terms related to splicing via the spliceosome (including cis-splicing and regulation of alternative splicing) and assembly of translation initiation complexes (eIF4F, preinitiation complex, and translation reinitiation), indicating a shared theme of RNA processing coupled to translation initiation.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0045292","count":9},{"id":"GO:0097010","count":8},{"id":"GO:0001731","count":8}]},{"hash":"765531874867879002","title":"RNA Processing and Translation Initiation Factors","description":"This cluster centers on RNA-centric processes: ncRNA-mediated gene silencing, regulation of mRNA splicing via the spliceosome, assembly of translation initiation complexes (eIF4F), formation of the translation preinitiation complex, and small-subunit processome activity, with proteins localizing to cytoplasmic stress granules. Together these terms point to a cohesive set of factors involved in RNA processing, ribosome biogenesis, and translation initiation regulation.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:1903608","count":9},{"id":"GO:0006378","count":8},{"id":"GO:1901407","count":8}]},{"hash":"621863617158540514","title":"Neuronal development and cytoskeletal signaling","description":"The cluster is enriched for neural development terms (brain and hippocampus development, dendritic spine formation) and cytoskeletal/ signaling activities (lamellipodium assembly, Rac signaling, Robo/Roundabout axon guidance, Hedgehog Smoothened pathway) plus neuronal protein trafficking (Golgi to plasma membrane). Although mitotic cell cycle terms appear, the dominant theme points to neuronal growth, synapse formation, and cytoskeletal remodeling.","confidence":"Medium","size":12,"edges":22,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0007224","count":6},{"id":"GO:0010592","count":6},{"id":"GO:0060999","count":6}]},{"hash":"254971041830766871","title":"Vascular inflammation and coagulation response","description":"The cluster shows enrichment for inflammatory and defense terms (inflammatory response, defense response to bacterium, response to lipopolysaccharide) alongside vascular-related processes (heart development, negative regulation of smooth muscle contraction, blood coagulation), plus oxidative detoxification. This combination points to a cohesive theme of immune-driven inflammation in a vascular/coagulation context.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0007507","count":2}]},{"hash":"2166292021674470844","title":"Spliceosome Assembly and Translation Initiation","description":"This cluster is dominated by GO terms for mRNA splicing and spliceosome assembly (e.g., mRNA cis splicing via spliceosome, spliceosomal complex assembly, small-subunit processome assembly) and includes terms related to translation initiation complex formation (eIF4F complex assembly, formation of the translation preinitiation complex). The combination suggests a set of RNA-processing factors that also partake in initiating translation, justifying a label centered on spliceosome assembly and translation initiation.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":8},{"id":"GO:0006378","count":5},{"id":"GO:1901407","count":5},{"id":"GO:0000245","count":5},{"id":"GO:0097010","count":4}]},{"hash":"1471126517091845263","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0000380","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0000389","count":1}]},{"hash":"1321207114291535925","title":"RNA Pol II Transcription Regulation and Chromatin Remodeling","description":"This cluster's top GO terms center on regulation of transcription by RNA polymerase II (both positive and negative regulation, initiation) and chromatin-associated processes (histone modifications, nucleosome dynamics, heterochromatin formation). A couple terms hint at developmental timing and post-transcriptional gene silencing, but the dominant signal is transcription control within a chromatin context, suggesting proteins that act as transcription regulators or chromatin modifiers.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0048510","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0007379","count":1}]},{"hash":"1512417248778696311","title":"Histone modification and mitosis regulation","description":"The recurring themes are histone methylation regulation (H3-K27, H3-K79) and mitotic processes (APC-dependent catabolic activity, mitotic cell cycle, and microtubule-based movement), suggesting a cluster tied to epigenetic control during cell division, despite a few peripheral signaling terms.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":3},{"id":"GO:0070562","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0007018","count":2}]},{"hash":"1764005683727199846","title":"DNA Repair and Mitotic Progression","description":"The top terms cluster around genome maintenance during cell division: nucleotide-excision repair, G2/M transition, chromosome segregation, mitotic exit, and SCF-proteasome\u2013mediated protein degradation. This suggests the proteins work together to coordinate DNA repair with mitosis. A few terms touch on immune signaling and viral processes, but the dominant theme is genome maintenance during mitosis.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":12},{"id":"GO:0000086","count":12},{"id":"GO:0031146","count":12},{"id":"GO:0007059","count":12},{"id":"GO:0016032","count":12}]},{"hash":"1834327904606840480","title":"Proteasome-mediated ubiquitin-dependent degradation","description":"The proteins are enriched for ubiquitin-dependent proteolysis, including SCF-dependent proteasomal ubiquitin-dependent degradation and polyubiquitination, pointing to a core role in tagging and degrading proteins via the proteasome. Some other terms (circadian rhythm regulation, cadmium response) may reflect broader connections to proteostasis and stress responses, but the dominant signal is ubiquitin-mediated proteasomal degradation.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0031146","count":8},{"id":"GO:0000209","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0042752","count":5}]},{"hash":"415078553796449360","title":"RNA processing and translation initiation","description":"The terms cluster around assembly and regulation of RNA-processing and translation machinery: initiation complex formation and assembly (eIF4F, preinitiation complex), ribosomal small-subunit and processome assembly, translation reinitiation, and spliceosome-mediated mRNA splicing regulation. Together these suggest a coordinated role in RNA processing and the initiation/assembly of the translation apparatus, rather than a single enzyme or pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0097010","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1902625469160072830","title":"Unknown","description":"The GO terms are very diverse (translation, redox/oxidoreductase regulation, pH response, aging, and unrelated obsolete terms) with no clear, cohesive functional theme tying the proteins together. Therefore a specific, representative label cannot be inferred.","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0019430","count":1},{"id":"GO:0010447","count":1},{"id":"GO:0001302","count":1},{"id":"GO:0003069","count":1}]},{"hash":"1147197169885536600","title":"Collagen biosynthesis and cartilage/skin development","description":"Top GO terms cluster around collagen production and ECM-associated skin and cartilage development (collagen biosynthetic process, skin development, growth plate chondrocyte development, endochondral bone morphogenesis) with collagen signaling and triple-helix assembly implied by protein heterotrimerization; a few terms appear less central (macrophage differentiation, host\u2013symbiont killing) and likely constitute noise.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0003431","count":2},{"id":"GO:0060351","count":2},{"id":"GO:0038063","count":2},{"id":"GO:0070208","count":2}]},{"hash":"1614712485251408292","title":"RNA processing and apoptotic regulation under stress","description":"Based on the top GO terms, this cluster centers on RNA-level regulation (mRNA splicing via spliceosome, regulation of mRNA stability in response to stress, miRNA-mediated silencing, transcription) together with apoptotic processes and their positive regulation. The ABA signaling term suggests stress-responsive regulation, and a few developmental terms may reflect broader regulatory roles. Overall, the proteins seem linked to controlling gene expression and cell fate under stress.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0007520","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0043065","count":3}]},{"hash":"1312524800603965559","title":"Mitotic spindle and cell cycle","description":"Based on top GO terms, the cluster centers on mitosis-related processes: mitotic spindle pole body duplication, microtubule nucleation, and general cell division/cell cycle. These terms dominate the list, suggesting the proteins function together in spindle assembly and progression through the cell cycle. Other hits related to regulation of signaling pathways may reflect broader cellular coordination but do not override the core mitotic theme.","confidence":"High","size":11,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903087","count":4},{"id":"GO:0007020","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0000200","count":4}]},{"hash":"74122880506900648","title":"GPCR Signaling and Development","description":"The top terms cluster around GPCR-mediated signaling: adenylate cyclase and phospholipase C pathways, cAMP and GTPase regulation, and phosphatidylinositol biosynthesis, with dopamine/adrenergic receptor signaling and even phototransduction. The inclusion of heart development and nipple morphogenesis suggests developmental contexts affected by GPCR signaling, along with macrophage chemotaxis as an immune-communication link. Taken together, the common theme is GPCR-driven signal transduction connected to developmental processes, hence the label.","confidence":"Medium","size":11,"edges":40,"triangles":70,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043950","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0010513","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0060158","count":11}]},{"hash":"2136487740460386663","title":"Fatty acid oxidation and quinone biosynthesis","description":"This cluster is dominated by GO terms for lipid and energy metabolism\u2014fatty acid beta-oxidation, ketone body catabolic process\u2014and quinone biosynthesis (menaquinone, phylloquinone), with additional catabolic and antibiotic biosynthetic processes. While a couple development terms appear, the core signal centers on metabolic energy production and vitamin-related biosynthesis, making this a cohesive metabolic cluster.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":8},{"id":"GO:0017000","count":7},{"id":"GO:0009234","count":4},{"id":"GO:0010124","count":4},{"id":"GO:0006574","count":4}]},{"hash":"1968590395702690257","title":"Developmental transcription and dopaminergic signaling","description":"This cluster shows a mix of GO terms centered on transcriptional regulation (DNA-templated transcription, nuclear export) and development (multicellular organism development) alongside neural signaling terms (cellular response to dopamine, antipsychotic drug response, cGMP signaling). The presence of sarcomere organization suggests broader cellular architecture, but the combination of transcriptional control with dopamine-related signaling and development supports a label around transcription coupled to neuromodulatory signaling in developmental contexts.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0019233","count":6},{"id":"GO:1903351","count":6}]},{"hash":"1925952006446052201","title":"Diverse membrane transport of molecules","description":"The top GO terms cluster around transport across membranes for a wide range of substrates (ions, lipids, sugars, drugs, and related molecules), indicating a shared function in membrane transport. The presence of an outlier term like stem cell proliferation does not override the dominant transport signal. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070731","count":2},{"id":"GO:0099040","count":2},{"id":"GO:0015689","count":2},{"id":"GO:0072089","count":2},{"id":"GO:0015734","count":2}]},{"hash":"483723897329187306","title":"Developmental morphogenesis and transcriptional regulation","description":"The proteins cluster around tissue morphogenesis (inner ear, ureteric bud, thyroid development, habenula) and neuronal fate specification, with additional emphasis on DNA-templated transcription and gene expression regulation. This suggests a coherent theme of developmental regulation across multiple organ systems, balancing morphogenesis with transcriptional control.","confidence":"High","size":11,"edges":12,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090190","count":8},{"id":"GO:2000288","count":7},{"id":"GO:0021986","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0021902","count":6}]},{"hash":"1926173630897762760","title":"Developmental organogenesis","description":"The top GO terms point to broad developmental processes across tissues\u2014growth plate cartilage, heart, placenta, and vagina development, plus neuron axonogenesis and retinoic acid signaling\u2014suggesting a theme of organogenesis and morphogenesis rather than a single pathway.","confidence":"Medium","size":11,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003430","count":10},{"id":"GO:0071222","count":10},{"id":"GO:0021952","count":10},{"id":"GO:0043433","count":10},{"id":"GO:2001275","count":10}]},{"hash":"1768555406708637240","title":"Developmental signaling and cytoskeleton regulation","description":"The top terms point to signaling and cytoskeletal control\u2014positive regulation of GTPase activity, tyrosine phosphorylation, TGF-beta\u2013driven responses, and actin filament capping\u2014along with development-related processes (heart and retina development) and cell proliferation. This suggests proteins in this cluster broadly coordinate signaling pathways that regulate cytoskeletal dynamics during development, though a few terms (e.g., molybdenum cofactor biosynthesis) may reflect annotation noise or multi-function proteins. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006777","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0008283","count":2}]},{"hash":"672816440366716386","title":"RNA transcription and RNA modification","description":"This cluster shows enrichment for transcription-related GO terms (RNA-templated transcription, transcription by RNA polymerase II) and RNA modification processes (tRNA and rRNA pseudouridine synthesis), suggesting a core theme around RNA synthesis and processing. Other terms like membrane transport and retina development are present but less represented, implying RNA biology is the primary shared function. ","confidence":"Medium","size":11,"edges":14,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0070588","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0001172","count":2},{"id":"GO:0019076","count":2}]},{"hash":"280473930373229862","title":"Mitochondrial translation and glutamine tRNA charging","description":"This cluster centers on mitochondrial protein synthesis and the specific charging of glutaminyl-tRNA, as shown by glutaminyl-tRNA aminoacylation, mitochondrial translation, and glutaminyl-tRNAGln biosynthesis via transamidation, with supporting mitochondrial metabolism (TCA cycle) terms.","confidence":"High","size":11,"edges":17,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006425","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0070681","count":3},{"id":"GO:0006099","count":2},{"id":"GO:2001162","count":2}]},{"hash":"991068426488364337","title":"Cardiac and skeletal muscle development and signaling","description":"The cluster\u2019s top GO terms cluster around muscle development (myoblast fusion; positive regulation of cardiac muscle cell proliferation) and related organ development (labyrinthine layer, thyroid gland, multicellular organism development), with supporting ion signaling (potassium transport; calcium-mediated signaling) that is characteristic of excitable tissues. Additional terms (centrosome duplication, autophagy regulation) align with cell-cycle and homeostasis processes often coordinated during development. Overall, these terms suggest a vertebrate development program focused on muscle formation with supporting signaling pathways.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0060711","count":8},{"id":"GO:0007520","count":8}]},{"hash":"310180543001841700","title":"Neural development and dendrite morphogenesis","description":"The dominant GO terms indicate nervous system development, CNS neuron development, and dendrite morphogenesis, with transcription activity suggesting regulation of neural differentiation. Some terms such as labyrinthine layer development and myoblast fusion appear less central, possibly reflecting broader developmental roles, but the core signal is neural development and dendrite formation.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031100","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0021954","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048813","count":2}]},{"hash":"2050040831551027235","title":"Neuronal Synaptic Plasticity and Behavior","description":"Top GO terms point to neuronal signaling and synaptic modulation (receptor clustering; Na+/K+ ion transport; LTP/LTD; prepulse inhibition) along with cerebellar development and behavioral associations (social behavior, mating). This suggests a cluster of proteins linked to synaptic communication and plasticity that can influence neural circuits and behavior, hence the chosen label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035176","count":3},{"id":"GO:1900273","count":3},{"id":"GO:0060292","count":3}]},{"hash":"1080339235174855218","title":"Glycan biosynthesis and immune-neural development","description":"The top GO terms center on glycan biosynthesis and glycosylation (L-fucose catabolic process; N-glycan fucosylation; protein glycosylation; Lewis a epitope biosynthesis), alongside immune and neural development processes (leukocyte migration; regulatory T cell differentiation; cerebral cortex neuron migration; neuronal stem cell maintenance; multicellular development). This suggests a cohesive theme where glycosylation modulates both immune cell trafficking and neural development, linking the cluster's proteins through glycan-related functions.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002361","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0042355","count":2},{"id":"GO:0002522","count":2},{"id":"GO:0036071","count":2}]},{"hash":"73976929471687500","title":"Hormone biosynthesis and reproductive development","description":"These proteins appear to participate in biosynthetic pathways for signaling molecules (retinoic acid, cortisol, prostaglandins, vitamin D) and in developmental processes of reproductive tissues (mammary gland and uterus). The presence of diverse hormone-related biosynthesis terms supports a theme around hormone metabolism, with reproductive development as a prominent context; a couple of terms like insecticide metabolism and sulfate assimilation are less central and may reflect broader metabolic capabilities. ","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":2},{"id":"GO:0090350","count":1},{"id":"GO:0042904","count":1},{"id":"GO:0010760","count":1},{"id":"GO:0017143","count":1}]},{"hash":"1844070671534818984","title":"Chromatin assembly during DNA replication","description":"The dominant GO terms point to chromatin maintenance and replication processes, including DNA replication, CENP-A\u2013containing chromatin assembly, histone modification, and telomeric/heterochromatin regulation. Peripheral terms like ER-Golgi transport and Rho signaling are present but secondary, so the core theme is chromatin dynamics tied to replication.","confidence":"High","size":11,"edges":18,"triangles":11,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0061641","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0070987","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1876690141337679357","title":"Ribosome Biogenesis and Preribosome Assembly","description":"The top GO terms center on preribosome assembly, export of the large ribosomal subunit from the nucleus, and maturation of LSU/SSU rRNA, all key steps in ribosome biogenesis and rRNA processing. While there are a few peripheral terms (microtubule anchoring, lipid biosynthesis), the dominant signal is ribosome assembly and maturation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0000027","count":1}]},{"hash":"1176621254434958234","title":"Neuronal synapse development and plasticity","description":"The top GO terms indicate strong enrichment for synaptic and neuronal processes: excitatory postsynaptic potentials, hippocampus development, dendritic spine development, regulation of synaptic vesicle exocytosis, and long-term neuronal synaptic plasticity, along with touch sensation. A couple of terms (mitotic cell cycle, ossification) are less related and may reflect shared cytoskeletal or general cellular processes, but the dominant signal clearly centers on synapse formation, neurotransmitter release, and activity-dependent plasticity in neurons.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0043931","count":2}]},{"hash":"2284266704317421929","title":"Unknown","description":"The top GO terms span several unrelated developmental and stress-response themes (eye lens development, inner ear labyrinthine layer development, myoblast fusion, angiogenesis) plus diverse responses (to cocaine, metals) and transcription. There isn\u2019t a single cohesive function that ties these terms together, so a specific label isn\u2019t warranted beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046329","count":3},{"id":"GO:2001033","count":3},{"id":"GO:0002088","count":3},{"id":"GO:0042220","count":3},{"id":"GO:1903936","count":3}]},{"hash":"372551580446945376","title":"Bacterial LPS and envelope biosynthesis","description":"Reasoning: The top GO terms are dominated by lipopolysaccharide biosynthetic processes and related steps (including ADP-L-glycero-beta-D-manno-heptose biosynthesis), which are central to bacterial outer membrane formation. Other terms like sporulation and PHB biosynthesis are peripheral but do not override the core signal. This cluster thus likely comprises proteins involved in bacterial cell envelope assembly, especially LPS synthesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0097171","count":4},{"id":"GO:0009244","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0042619","count":4}]},{"hash":"1855401486543592993","title":"TLR Signaling and NF-kB Regulation","description":"The top GO terms cluster around toll-like receptor pathways (TLR2/3/4), MyD88-dependent/independent signaling, LPS response, and I-kappaB/NF-kappaB regulation, indicating an innate immune signaling module centered on TLR-driven NF-\u03baB activation and its negative control.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007252","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0070373","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0002755","count":2}]},{"hash":"354551666722950245","title":"RNA processing and ribosome biogenesis factors","description":"The top terms center on mRNA splicing, mRNA transport, and maturation of rRNA (5.8S and LSU), indicating a core theme of RNA metabolism and ribosome assembly. Additional terms about protein interaction and ubiquitination may reflect regulatory roles in the cell cycle and stress responses, but the dominant signal is RNA processing and ribosome biogenesis. ","confidence":"Medium","size":10,"edges":16,"triangles":7,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0051028","count":6},{"id":"GO:0051260","count":5}]},{"hash":"1896198479794300532","title":"Neural crest\u2013driven facial and ocular development","description":"This cluster is enriched for neural crest cell development, optic cup morphogenesis, forebrain and face development, and retinal metabolism, with GABA catabolic/shunt and retinoic acid biosynthesis terms, suggesting proteins involved in neural crest\u2013derived brain/eye/face patterning and neural signaling.","confidence":"High","size":10,"edges":20,"triangles":20,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006540","count":5},{"id":"GO:0032180","count":5},{"id":"GO:0042904","count":5},{"id":"GO:0009450","count":5},{"id":"GO:0014032","count":5}]},{"hash":"1082964793981078134","title":"Muscle and neural signaling networks","description":"The GO terms cluster around signaling pathways and processes coordinating muscle and nervous system development and function: insulin receptor signaling, Wnt signaling, ephrin receptor signaling, and MAPK cascades; neural connectivity features include axon fasciculation and trans-synaptic signaling; muscle stretch response and regulation of cardiac muscle proliferation highlight muscle physiology. A DNA repair term appears but does not define the group, whose shared theme is intercellular signaling in muscle-neural development and function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0060044","count":3},{"id":"GO:0000196","count":3},{"id":"GO:0097156","count":3},{"id":"GO:0090263","count":3}]},{"hash":"284078006063960847","title":"Cajal body\u2013associated RNA localization and telomere maintenance","description":"The terms point to RNA processing and localization within Cajal bodies, including scaRNA localization and telomerase RNA localization with telomere maintenance, which is the clearest shared function among the entries, while a few outliers (virion assembly, cytokine production) appear less connected.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019068","count":9},{"id":"GO:1904871","count":9},{"id":"GO:0042220","count":9},{"id":"GO:0033198","count":9},{"id":"GO:0090666","count":9}]},{"hash":"1974625925459430893","title":"Transmembrane Transporters for Ions and Metabolites","description":"The top GO terms are dominated by transmembrane transport activities for ions (nitrate, nitrite, phosphate, sodium), small molecules and xenobiotics, and even neurotransmitter loading into synaptic vesicles. A few terms tie to metabolism (fucose), but the unifying theme is proteins that shuttle substances across membranes. Thus the cluster is best described as transporters handling ions and metabolites across membranes.","confidence":"High","size":10,"edges":14,"triangles":6,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":6},{"id":"GO:0015706","count":6},{"id":"GO:0035435","count":6},{"id":"GO:0042891","count":6},{"id":"GO:0035461","count":6}]},{"hash":"1400837716365941076","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009442","count":2},{"id":"GO:0030516","count":2},{"id":"GO:0019262","count":2},{"id":"GO:0051491","count":2},{"id":"GO:0007420","count":2}]},{"hash":"2113807447569860518","title":"Chromosome Condensation and Chromatin Assembly","description":"The top GO terms cluster around chromosome condensation during mitosis, DNA replication\u2013dependent chromatin assembly, and meiotic cohesion and spindle elongation, indicating a core theme of chromosome dynamics and chromatin organization during cell division. Additional terms point to related nuclear processes (nuclear pore complex assembly, transcription-coupled repair) and RNA processing, suggesting a broader involvement in nuclear maintenance during cell cycle events. Taken together, the cluster seems to reflect proteins coordinating chromosome structure, replication-associated chromatin packaging, and spindle dynamics in cell division, with some ancillary links to nuclear transport and RNA maturation. Confidence is medium because there is a strong, coherent core theme but also diverse, less-central terms that broaden the functional scope.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007076","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000188","count":2},{"id":"GO:0051754","count":2}]},{"hash":"160780597433253778","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071051","count":3},{"id":"GO:0071038","count":3},{"id":"GO:0071042","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0034475","count":3}]},{"hash":"284822340546979798","title":"Drosophila neural regulation of courtship and behavior","description":"The terms strongly point to Drosophila biology: dosage compensation on the X chromosome and male courtship song, along with motor behavior and motor neuron apoptosis, suggesting a cluster centered on neural circuits governing courtship and movement in the fruit fly. Additional terms on RNA processing and gene silencing reflect general regulatory mechanisms supporting neural function, but the standout theme is Drosophila neural control of mating-related behavior.","confidence":"Medium","size":10,"edges":11,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009047","count":2},{"id":"GO:0046726","count":2},{"id":"GO:0097049","count":2},{"id":"GO:0030423","count":2},{"id":"GO:0008285","count":2}]},{"hash":"1960643138019619462","title":"Cellular Stress Response and Protein Quality Control","description":"The top GO terms cluster around oxidative and xenobiotic stress responses (hydrogen peroxide response, xenobiotic stimulus), apoptosis, and protein homeostasis through deubiquitination (K6/K29-linked) and ERAD-related maintenance. There is also signaling context (calcium/NFAT) and a mating-associated term (karyogamy) that may be incidental to the main theme. Taken together, the dominant pattern points to stress response and proteostasis regulation, rather than a single specialized pathway.","confidence":"Medium","size":10,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006915","count":2}]},{"hash":"317525437653598615","title":"Nuclear import and mitotic chromosome dynamics","description":"This cluster centers on nuclear transport (NLS-bearing protein import and ribosomal protein import into the nucleus) and chromosome maintenance during cell division (centromeric cohesion and mitotic chromatid separation), with related regulation of DNA replication. The combination suggests a theme of nuclear import coupled to chromosome dynamics and replication control. Other terms hint at broader cell-cycle signaling, but the core connection is nuclear transport with chromosome maintenance.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":3,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006461","count":3},{"id":"GO:0051754","count":3},{"id":"GO:0042518","count":3},{"id":"GO:0071230","count":3},{"id":"GO:0006610","count":3}]},{"hash":"229385569034026934","title":"ER-Golgi vesicle trafficking in neural development","description":"This cluster centers on ER-to-Golgi and COPII vesicle budding terms, along with protein localization to the plasma membrane, and neural development processes such as brain development, radial glial scaffolds, and oligodendrocyte differentiation. While some cell-cycle terms appear, the dominant pattern ties vesicle trafficking to neural development, with a touch of general mitotic machinery. Unknown terms are likely noise. ","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0048714","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0090114","count":4}]},{"hash":"2023296362124806312","title":"BMP/SMAD signaling in neural development","description":"The cluster centers on GO terms related to SMAD signaling regulation and BMP pathway modulation, with explicit links to neural development such as dentate gyrus and CNS neuron development. Additional terms describe broader regulatory processes (dephosphorylation, translational regulation) that commonly accompany signaling networks, supporting a cohesive label that emphasizes BMP/SMAD signaling in neural development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":1},{"id":"GO:0021542","count":1},{"id":"GO:0030514","count":1},{"id":"GO:0045671","count":1},{"id":"GO:2000271","count":1}]},{"hash":"199386743605468327","title":"Unknown","description":"The top GO terms span chromatin-related processes (subtelomeric heterochromatin formation, centromeric cohesion) alongside diverse metabolism and post-translational modification processes (mycothiol, melatonin, glucosamine metabolism; polyamine acetylation; N-terminal propionylation). This wide, cross-kingdom mix suggests no single unifying function for the cluster, making a specific, representative label unlikely.","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":10},{"id":"GO:0010125","count":9},{"id":"GO:0030187","count":9},{"id":"GO:2000025","count":9},{"id":"GO:0071962","count":9}]},{"hash":"2211424685430406123","title":"Unknown","description":"The terms are highly diverse, spanning translation, cardiac development/muscle, immune/stress responses, and metabolism, with no single cohesive function. Therefore no plausible specific label; label as Unknown.","confidence":"","size":9,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1903779","count":1},{"id":"GO:0003231","count":1},{"id":"GO:0048738","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1501058317380716456","title":"Neural signaling and development","description":"The top GO terms are dominated by neural-related processes: response to cocaine, excitatory postsynaptic potential, negative regulation of dendrite morphogenesis, and myelination in the peripheral nervous system, all pointing to neuronal signaling and neural development. While a few terms relate to general cell cycle and mitosis, the strongest and most frequent themes center on nervous system function and morphogenesis, suggesting the cluster groups neuronal signaling/development proteins. Confidence: Medium","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0035562","count":3},{"id":"GO:0022011","count":2}]},{"hash":"2149016714550458287","title":"Ribosome biogenesis and translation initiation","description":"Strong signals for ribosome assembly and translation initiation: eIF4F complex assembly, formation of translation preinitiation complex, and small-subunit processome assembly. Some obsolete or unrelated terms appear, but the core theme ties to initiating translation and assembling ribosomal subunits.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":2},{"id":"GO:0006120","count":1},{"id":"GO:0072358","count":1},{"id":"GO:0061458","count":1},{"id":"GO:0010259","count":1}]},{"hash":"1755517456762649130","title":"Developmental Signaling Pathways","description":"This cluster is dominated by GO terms tied to signaling cascades that drive development and differentiation, including Rho signaling, ERK/MAPK cascades, Hedgehog (Smoothened) signaling, and Roundabout/SLIT pathways, as well as processes like brain development and myoblast fusion. There is also mention of mating projection initiation, which can relate to pheromone-activated developmental programs in some organisms, reinforcing a broader theme of developmental signaling and morphogenesis. Overall, the shared theme is signaling pathways governing development and cellular differentiation, albeit across diverse contexts.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0031384","count":6},{"id":"GO:0007420","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0007520","count":5}]},{"hash":"295327125202380455","title":"Viral life cycle and entry","description":"Most terms point to steps in the viral life cycle and how the virus interacts with host cells (virion assembly, uncoating, membrane fusion, genome activation, latency). A few denote host processes that viruses often co-opt (lipid droplets, protein folding). The cluster thus seems to group proteins involved in viral replication/entry and virus\u2013host regulation rather than a single host pathway.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0019068","count":1},{"id":"GO:0044829","count":1},{"id":"GO:0019058","count":1},{"id":"GO:0050714","count":1}]},{"hash":"1497361920574218625","title":"Embryonic Development and Morphogenesis","description":"The GO terms show broad embryonic development and tissue morphogenesis across multiple lineages (mesoderm, cartilage, hair follicles, pancreas, placenta, facial structures) and pattern formation, suggesting a general developmental program rather than a single pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060806","count":3}]},{"hash":"130702122806311172","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":18,"triangles":13,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0000464","count":5},{"id":"GO:1903608","count":5},{"id":"GO:0042255","count":4}]},{"hash":"1732625877993339029","title":"RNA Processing and Transcription Termination","description":"The cluster is enriched for RNA processing functions: termination of RNA polymerase II transcription, mRNA splicing via the spliceosome, mRNA polyadenylation, snoRNA splicing, and regulatory ncRNA\u2013mediated gene silencing. Additional terms touch ribosome assembly and DNA topological changes, but the dominant signal is RNA maturation and transcription termination.","confidence":"High","size":9,"edges":17,"triangles":17,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0031047","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0048026","count":3}]},{"hash":"985219186731644489","title":"Embryonic Development and Mitosis","description":"The dominant GO signals are embryonic development and mitosis (embryonic organ development; mitotic cell cycle; spindle orientation; centrosome separation) with related morphogenesis and membrane targeting (budding apical bud growth; regulation of tight junction assembly), while a minority reflect stress responses; overall, the proteins seem to coordinate cell division with tissue development.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007118","count":4},{"id":"GO:0048568","count":3},{"id":"GO:0090314","count":3},{"id":"GO:0000132","count":3},{"id":"GO:2000810","count":3}]},{"hash":"529270641039411983","title":"Angiogenesis and Heart Development","description":"The top GO terms are strongly centered on blood vessel formation and cardiovascular development (angiogenesis and heart development), with supporting mentions of VEGF signaling and tissue morphogenesis (planar polarity, convergent extension). While a few terms are less directly related, the dominant theme ties to vascular formation and heart morphogenesis, making this the most representative label for the cluster.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0097324","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0038091","count":3}]},{"hash":"1468010947474222787","title":"Unknown","description":"The GO terms cover nervous system development, skin and heart morphogenesis, cytoskeletal processes, and gene regulation with no single coherent function tying all terms together. There isn\u2019t a clear unifying theme to label the cluster beyond Unknown.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0006919","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0097264","count":2}]},{"hash":"1313795499204046088","title":"Calcium-Driven Dopaminergic Synaptic Transmission","description":"The cluster centers on calcium entry into neurons, which triggers neurotransmitter release, with a clear emphasis on dopaminergic synaptic signaling (positive regulation of dopaminergic transmission), along with general neuronal excitability features (membrane depolarization, action potential) and sensory processing. The presence of cocaine response reinforces the dopaminergic pathway theme, while optic nerve morphogenesis fits as a broader neuronal development context. Overall, calcium-dependent dopaminergic synaptic transmission best captures the dominant functional theme of these proteins.","confidence":"High","size":9,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":6},{"id":"GO:0042220","count":5},{"id":"GO:0001941","count":5},{"id":"GO:2001226","count":5},{"id":"GO:0050893","count":5}]},{"hash":"7220570310020189","title":"DNA Damage Response and Genome Maintenance","description":"This cluster centers on genome stability: multiple terms pertain to DNA repair (global genome NER, positive regulation of DNA repair), cell-cycle checkpoints (mitotic G1 DNA damage checkpoint signaling), telomere maintenance, and apoptosis, with chromatin-related processes (heterochromatin formation, histone phosphorylation) also represented. The overall pattern suggests proteins that coordinate damage recognition/repair with chromatin state and cell fate decisions to preserve genome integrity, with a couple of peripheral terms (interferon signaling, prolactin secretion) that may reflect broader stress responses. ","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060340","count":9},{"id":"GO:0031571","count":9},{"id":"GO:0030466","count":9},{"id":"GO:0070911","count":9},{"id":"GO:1904153","count":9}]},{"hash":"127887268790737887","title":"Glycoprotein N-glycan trimming and ERAD","description":"The prevailing GO terms point to trimming of terminal and mannose residues on N-glycans in the Golgi/ER, together with ubiquitin-dependent glycoprotein ERAD and related retrograde transport. This indicates a functional cluster centered on glycoprotein remodeling and quality-control degradation in the secretory pathway. A single term about mitotic sister chromatid cohesion appears unrelated to this core theme, likely a spurious hit or annotation artifact.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036510","count":1},{"id":"GO:1904381","count":1},{"id":"GO:0036512","count":1},{"id":"GO:0036509","count":1},{"id":"GO:0097466","count":1}]},{"hash":"683318151927626986","title":"Adhesion-Driven Survival Signaling","description":"The terms point to a cohesive module centered on cell adhesion and receptor signaling: integrin-mediated signaling, receptor clustering, and substrate adhesion-dependent spreading, feeding into ERK and PI3K/AKT pathways, with regulation of anoikis and PDGF receptor signaling. This suggests proteins coordinating adhesion dynamics with survival and growth-factor\u2013mediated signaling. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":4},{"id":"GO:0043277","count":4},{"id":"GO:0007229","count":3},{"id":"GO:0034446","count":3},{"id":"GO:0070371","count":3}]},{"hash":"397853978505381685","title":"Cardiac development and contraction regulators","description":"The GO terms show explicit heart development and cardiac muscle contraction, supported by related developmental processes (blastocyst development) and regulatory signaling (Rho GTPase signaling and transcription regulation), suggesting a cohesive theme around cardiac development and regulation of cardiac muscle function, with some ancillary developmental signals.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:2000678","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1126764103723440298","title":"Unknown","description":"The GO terms are dispersed across neural development, muscle function, nitric oxide signaling, oxidative stress, and renal/platelet processes, with no single cohesive theme that defines the cluster.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048665","count":1},{"id":"GO:0007528","count":1},{"id":"GO:0021522","count":1},{"id":"GO:0070527","count":1},{"id":"GO:0098869","count":1}]},{"hash":"486227075622896329","title":"Unknown","description":"The terms span hormone response, immune differentiation, apoptosis and autophagy regulation, Golgi transport, and various developmental processes, with no single cohesive function tying the cluster together. This diversity makes it inappropriate to assign a specific functional label. ","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043627","count":2},{"id":"GO:0046638","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0042997","count":2},{"id":"GO:0060711","count":1}]},{"hash":"824198083113838297","title":"Developmental signaling and morphogenesis","description":"The GO terms point to broad developmental processes and tissue shaping\u2014Wnt signaling regulation, craniofacial and skeletal development (hard palate, intramembranous ossification), multicellular development, oligodendrocyte differentiation, and migration of keratinocytes and smooth muscle cells\u2014indicating a common theme of development and morphogenesis, with a few outliers like heme transport and peptidoglycan turnover.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0060022","count":2},{"id":"GO:0015886","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0009254","count":2}]},{"hash":"1018624125294872283","title":"Translation and transcription regulation","description":"The cluster is dominated by translation-related terms (translation, cytoplasmic translation, ribosomal large subunit biogenesis) and includes transcription elongation/termination regulation terms, indicating involvement in gene expression control at both transcriptional and translational levels, including ribosome biogenesis.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0002181","count":2},{"id":"GO:0042273","count":1},{"id":"GO:1904803","count":1},{"id":"GO:0045727","count":1}]},{"hash":"1378069822684600557","title":"Adipocyte lipid biosynthesis and differentiation","description":"This cluster is dominated by lipid-related GO terms: sphinganine and sphingosine biosynthesis, monounsaturated fatty acid biosynthesis, and white fat cell differentiation, all pointing to lipid production and adipocyte development. The presence of a few obsolete terms or unrelated items does not obscure the clear lipid metabolism and adipogenesis theme. ","confidence":"High","size":8,"edges":5,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006667","count":3},{"id":"GO:0050872","count":3},{"id":"GO:0044130","count":3},{"id":"GO:0010205","count":3},{"id":"GO:0046512","count":3}]},{"hash":"544548884290747880","title":"NF-kappaB/TNF inflammatory signaling","description":"The cluster\u2019s top GO terms highlight canonical NF-kappaB signaling and TNF-mediated signaling, pointing to an inflammation-related function. A few terms about development and neuron projection may reflect multifunctional roles or annotation noise, but the dominant theme appears to be inflammatory signaling pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1990138","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045648","count":2}]},{"hash":"1261013582736218333","title":"Neuroendocrine GPCR Signaling & Cardiac Regulation","description":"This cluster is dominated by GPCR-related signaling and downstream second-messenger pathways (cGMP/cAMP), including adenylate cyclase\u2013inhibiting opioid signaling, and brain-regulated systems such as the renin-angiotensin pathway and catecholamine-mediated heart contraction. While a few terms touch development or xenobiotic response, the shared theme is neuroendocrine GPCR signaling influencing cardiac and neural functions.","confidence":"Medium","size":8,"edges":21,"triangles":23,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060658","count":4},{"id":"GO:0010759","count":4},{"id":"GO:0060427","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0007199","count":4}]},{"hash":"467508979077067782","title":"RNA Processing and Translation Initiation","description":"These proteins cluster around RNA maturation and translation control: initiation complex assembly (eIF4F, preinitiation complex), translation reinitiation, spliceosome-regulated splicing, mRNA export, and ribosome biogenesis (small-subunit processome). The common theme is RNA processing and the regulation of mRNA fate and translation, especially under stress.","confidence":"High","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":7},{"id":"GO:0097010","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0034462","count":6},{"id":"GO:0075525","count":6}]},{"hash":"2291665850541510669","title":"Developmental and Neuronal Signaling","description":"The GO terms point to major signaling pathways (Wnt, EGFR, MAPK/Rho) and processes tied to development (heart and nervous system development) as well as synaptic activity (excitatory postsynaptic potential) and exocytosis. This suggests a cluster of proteins involved in coordinating developmental signaling with neuronal communication and cytoskeletal dynamics, rather than a single specific pathway. The combination of developmental and neural function terms best captures the shared role of these proteins in signaling suitable for development and synaptic activity.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000186","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007173","count":2}]},{"hash":"323353681917428803","title":"Ubiquitin-Dependent Proteostasis","description":"The top GO terms point to ubiquitination and ubiquitin\u2011dependent degradation pathways (protein ubiquitination; ERAD), suggesting a core theme of proteostasis and protein turnover. Additional terms imply connections to transcriptional regulation via ubiquitin-mediated factors, stress responses, and cell cycle/development processes, indicating the cluster reflects regulation of protein quality control that intersects with growth and immune-related pathways. Overall, a coherent, protein-turnover\u2013focused theme is present, giving confidence as Medium.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0007419","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0048103","count":1},{"id":"GO:0070301","count":1}]},{"hash":"1173111513113461657","title":"Mitotic spindle and centrosome regulation","description":"This cluster is dominated by terms tied to the mitotic cell cycle, centrosome cycle, and spindle orientation, suggesting proteins involved in regulating mitosis and centrosome dynamics. While a few terms reference development or signaling, the core theme centers on cell division machinery and its regulation.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0007118","count":2},{"id":"GO:0000132","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0010754","count":2}]},{"hash":"1855764834785686011","title":"Developmental signaling and organ formation","description":"This cluster is dominated by developmental and organ-formation roles, including muscle and heart development (myoblast fusion, cardiac muscle proliferation) and thyroid/ear organogenesis, supported by signaling pathways (calcium-mediated signaling, Hedgehog/Smoothened) and related cellular processes.","confidence":"High","size":8,"edges":18,"triangles":21,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060711","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0060045","count":6},{"id":"GO:0016242","count":6},{"id":"GO:0030878","count":6}]},{"hash":"496380409573718825","title":"Ubiquitin Cycle Regulation","description":"These proteins are enriched for ubiquitination and deubiquitination activities (including K6-, K29-, K63-, and K11-linked deubiquitination), along with ubiquitin-dependent ERAD and general cell-cycle regulation, and a noted impact on TLR3 signaling. This consistent pattern supports a cohesive role in ubiquitin-cycle regulation governing protein turnover and signaling.","confidence":"Medium","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":2},{"id":"GO:0044313","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0035523","count":2},{"id":"GO:0070536","count":2}]},{"hash":"1084982633468121200","title":"Neural development and axon guidance signaling","description":"The top GO terms cluster around nervous system development, axon guidance, and Roundabout (ROBO) signaling, with regulation of ERK/MAPK pathways, pointing to a neural development and axon pathfinding module. Some terms (e.g., dendritic cell differentiation, cartilage morphogenesis, pancreatic cell development) may reflect broader embryonic processes or pleiotropy but do not override the dominant neural/grouping signal.","confidence":"High","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":4},{"id":"GO:0035385","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070374","count":3}]},{"hash":"232270859728694423","title":"Intracellular trafficking and organelle dynamics","description":"This cluster mixes GO terms for ER-to-Golgi transport and Golgi localization with mitochondrial fission/organization, along with nuclear RNA processing steps like ribosomal subunit biogenesis and mRNA export, suggesting a broad theme of intracellular traffic and organelle maintenance. The terms point to cellular logistics rather than a single pathway, so a compact label capturing transport and organelle dynamics fits best.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006406","count":2},{"id":"GO:0031584","count":2}]},{"hash":"342188010965314454","title":"Neuronal development and cytoskeletal regulation","description":"The terms converge on neuronal development (forebrain development, neuron apoptotic process) and cytoskeleton/trafficking dynamics (microtubule-based movement, Golgi-to-ER transport), plus related signaling and protein regulation (kinase activity, ubiquitin ligase activity, chromatin assembly, cell-cycle terms), suggesting a cluster tied to neuronal differentiation with cytoskeletal and trafficking regulation, though some cell-cycle signals are also present.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030900","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0071902","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0051402","count":5}]},{"hash":"2167429328239220557","title":"mRNA Processing and Nucleolar Localization","description":"The GO terms cluster around RNA processing, especially splicing and mRNA capping, with multiple entries on protein localization to the nucleolus, suggesting a group of proteins involved in post-transcriptional RNA maturation and nucleolar targeting. Some telomere and receptor-related terms appear incidental.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":1},{"id":"GO:0032211","count":1},{"id":"GO:0006370","count":1},{"id":"GO:1904876","count":1},{"id":"GO:1904744","count":1}]},{"hash":"893409782466237089","title":"Organelle Protein Import and Energy Metabolism","description":"The top GO terms cluster around importing proteins into organelles (mitochondrial matrix and chloroplast stroma) and enhancing oxidative phosphorylation, pointing to a core function in targeting proteins to energy-producing compartments and supporting energy metabolism. Other terms (cell cycle, RNA processing, methylation) are single instances and do not form a cohesive alternative theme, so the organelle import/energy focus best represents the cluster.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:1903862","count":1},{"id":"GO:0071850","count":1},{"id":"GO:0007049","count":1},{"id":"GO:1903705","count":1}]},{"hash":"1078550940314240037","title":"Mitochondrial Translation Machinery","description":"The GO terms are dominated by mitochondrial tRNA aminoacylation (aspartyl-, asparaginyl-, and lysyl-tRNA) and by mitochondrial translation, including tRNA wobble modification and general translation, indicating these proteins participate in the mitochondrial protein synthesis apparatus. Some DNA repair/recombination terms appear, but they are less representative of the main function. Overall, the cluster aligns with mitochondrial translation and tRNA processing roles.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070146","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070145","count":3},{"id":"GO:0070154","count":3},{"id":"GO:0071915","count":3}]},{"hash":"2188320555063669087","title":"Dopamine/Adrenergic GPCR Signaling","description":"The GO terms point to GPCR-driven signaling pathways, especially dopamine and adrenergic receptor\u2013mediated signaling activating adenylate cyclase and phospholipase C, along with related processes like PI biosynthesis and phototransduction. The presence of nervous system development terms further supports a broader role for GPCR signaling in neuronal contexts. Overall, the cluster appears to be centered on ligand-activated GPCR signaling rather than a single downstream pathway.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0043950","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0010513","count":6},{"id":"GO:0060158","count":6}]},{"hash":"103386420413370025","title":"EGF/Ephrin Receptor Signaling","description":"The cluster\u2019s top GO terms cluster around receptor-mediated communication and downstream signaling (EGF receptor activity regulation, ephrin signaling, and receptor internalization), plus related cell-cell signaling and developmental processes. A couple of terms are less connected (mismatch repair, IgE isotype switching), but the majority support a coherent theme of growth factor and receptor signaling and trafficking.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0032425","count":3},{"id":"GO:0007267","count":3},{"id":"GO:2000394","count":3},{"id":"GO:0008361","count":3}]},{"hash":"1121990608695687207","title":"Hormone biosynthesis and reproductive development","description":"The presence of GO terms for cortisol biosynthesis, prostaglandin biosynthesis, and 9-cis-retinoic acid biosynthesis, along with mammary gland and uterus development, points to a shared theme of hormonal signaling and reproductive tissue development. Additional terms related to vitamin D catabolism and xenobiotic metabolism are peripheral but not dominant.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090350","count":3},{"id":"GO:0042904","count":3},{"id":"GO:0010760","count":3},{"id":"GO:0017143","count":3},{"id":"GO:0060065","count":3}]},{"hash":"1665032100866156508","title":"Developmental differentiation and chromatin regulation","description":"Most terms point to developmental processes (brain, neuron projection, gonad, osteoblast differentiation, and multicellular organism development). A subset involves gene expression control via chromatin assembly (CENP-A) and histone acetylation, plus mRNA splicing. The cluster seems to reflect developmental programs accompanied by chromatin/gene-expression regulation, rather than a single precise pathway, hence the label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1526830983193220365","title":"Cytoskeletal organization and cell polarity","description":"Top GO terms indicate a shared emphasis on cytoskeletal dynamics and cell shape regulation (actin cortical patch assembly; sarcomere organization; establishment or maintenance of cell polarity regulating cell shape). Organellar inheritance terms (mitochondrion/vacuole) further point to cytoskeleton-dependent partitioning, while related processes like platelet aggregation and retina homeostasis can reflect cytoskeletal roles in specialized cells. Taken together, these functions cluster around cytoskeletal structure and polarity control.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":6},{"id":"GO:0000011","count":6},{"id":"GO:0071963","count":6},{"id":"GO:0000147","count":6},{"id":"GO:0001895","count":5}]},{"hash":"1641721783336418861","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019068","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0071031","count":1},{"id":"GO:0039702","count":1}]},{"hash":"331213804414089901","title":"Ubiquitin-mediated ERAD and aggresome quality control","description":"This cluster is enriched for ubiquitin-proteasome\u2013related processes: ubiquitin-dependent ERAD pathway, protein autoubiquitination, and ER-associated degradation, as well as aggresome assembly. Together these point to a proteostasis/quality-control theme, handling misfolded or damaged proteins. Additional GO terms for ribosomal small subunit assembly and SSU-rRNA maturation may reflect background housekeeping or shared components, but they do not define the main function. The autophagy regulation and TNF signaling terms appear as secondary connections. Overall, a label around ubiquitin-mediated protein quality control, ERAD, and aggresome formation seems most representative.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0070842","count":5},{"id":"GO:0000028","count":5},{"id":"GO:0002109","count":5}]},{"hash":"1550168737268618887","title":"Neuronal development and signaling","description":"The cluster prominently features GO terms tied to nervous system development and neural signaling, such as nervous system development, substantia nigra development, excitatory postsynaptic potential, Roundabout (Slit-Robo) signaling, smoothened (Hedgehog) signaling, and ERK cascade regulation, suggesting these proteins collectively participate in neural development and synaptic signaling pathways. A few terms relate to general cellular trafficking or chromatin processes and are less central to the main theme, but do not override the dominant neuronal theme.","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006348","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0060079","count":2}]},{"hash":"763896316797040967","title":"Nutrient and Stress Response Signaling","description":"The proteins in this cluster show enrichment for responses to glucose, nutrients, hydrogen peroxide, hypoxia, cAMP, and estrogen, suggesting a broad role in sensing and transducing metabolic and environmental signals. The presence of a glyoxylate cycle term and cell division indicates links to metabolism and growth, while older terms hint at protein quality control connections. Overall, the cluster seems tied to metabolic signaling and cellular stress responses rather than a single dedicated pathway.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009749","count":3},{"id":"GO:0042542","count":3},{"id":"GO:0051591","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0001666","count":3}]},{"hash":"1470195860757351644","title":"Ubiquitin-Dependent Protein Degradation","description":"The most represented function is ubiquitin-dependent protein catabolic process, implying a central role in protein turnover. Other terms point to diverse regulatory processes (muscle development, circadian rhythm, kidney transport, and immune differentiation) that can be governed by ubiquitination. Because there are no edges connecting the proteins, this label emphasizes a unifying theme of protein degradation rather than a single pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:2000312","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0042748","count":3},{"id":"GO:0072156","count":3}]},{"hash":"1292305067703042636","title":"Regulation of signaling and apoptosis","description":"The cluster is characterized by GO terms emphasizing positive regulation of GTPase activity, Wnt signaling, and JNK cascade, along with the apoptotic process, pointing to proteins that modulate signaling pathways and cell fate decisions. Occasional terms related to placental morphogenesis or histone modification are present but less central, suggesting a core theme of signaling regulation linked to apoptosis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0080182","count":2}]},{"hash":"128991359763821467","title":"Membrane Transporters for Ions and Small Molecules","description":"The top GO terms cluster around transmembrane transport for a diverse set of substrates (vitamins, xenobiotics, nitrate, cations, phosphate, sialic acid, potassium) and even neurotransmitter loading, indicating these proteins primarily function as membrane transporters moving various molecules across membranes.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0098700","count":2},{"id":"GO:0015706","count":2}]},{"hash":"436808546488634367","title":"Membrane Transport and Secretion","description":"This cluster shows a concentration of GO terms centered on transport and movement of various molecules across membranes (ceramide, taurine, heme, bile acids, phospholipids, and chemotherapeutic drugs) and related secretion and channel regulation. The stem cell proliferation term is a weaker outlier; overall, the common theme is diverse membrane transport/secretion activities rather than a single specific pathway, justifying this label.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0099040","count":1},{"id":"GO:0015689","count":1},{"id":"GO:0032782","count":1},{"id":"GO:0072089","count":1},{"id":"GO:0015734","count":1}]},{"hash":"2189932135589825176","title":"Nuclear transport and ribosomal protein import","description":"The GO terms cluster around nucleus-centered transport: nuclear pore complex assembly, import of proteins (including ribosomal proteins) into the nucleus via NLS signals, and export of ribosomal subunits from the nucleus. While there are a few related terms on microtubule organization and regulation of other processes, the dominant theme is nuclear transport machinery and ribosome-related trafficking.","confidence":"High","size":7,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051292","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0030953","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0006610","count":4}]},{"hash":"955853689753271406","title":"Synaptic assembly and postsynaptic density","description":"The cluster is driven by GO terms centered on synapse formation and postsynaptic architecture, including synapse assembly, chemical synaptic transmission, neurotransmitter secretion, and explicit postsynaptic density components (gephyrin clustering and PSD-95 clustering). These terms suggest a neuronal synapse\u2013focused function for the proteins, with a few other terms reflecting broader developmental processes that are less representative. Overall, the dominant theme is synaptic organization and neurotransmission.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":1},{"id":"GO:0007269","count":1},{"id":"GO:0042060","count":1},{"id":"GO:0055113","count":1},{"id":"GO:1903553","count":1}]},{"hash":"1308554724826981888","title":"Diverse Solute Transporters","description":"The top GO terms cluster around transport across membranes for a variety of substrates, including neurotransmitter loading into synaptic vesicles, nitrate, organic cations, phosphate, sialic acid, potassium, vitamins, trehalose, and fructose. This pattern indicates a group of membrane transport proteins with broad substrate specificity, rather than enzymes or structural proteins. Hence, the name reflects a cohesive transport-focused function across diverse solutes.","confidence":"High","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0070715","count":4},{"id":"GO:0006817","count":4},{"id":"GO:0006004","count":4}]},{"hash":"404538090690072929","title":"Unknown","description":"The GO terms are highly diverse, including actin filament bundle assembly, platelet aggregation, endocytic recycling, various developmental morphogenesis terms, and signaling pathways. With no clear single shared function or pathway linking all proteins, there isn\u2019t a reliable, specific label that captures the cluster\u2019s common theme. Therefore, Unknown with no confident label.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0070527","count":2},{"id":"GO:0035331","count":2},{"id":"GO:0071657","count":2},{"id":"GO:0072283","count":2}]},{"hash":"1038758425367780013","title":"Unknown","description":"These proteins show annotations across very diverse processes: sporulation assembly in fungi, mRNA polyadenylation (obsolete), phosphatidylinositol phosphate biosynthesis and endomembrane organization (membrane-related), ruffle assembly, megakaryocyte and myelin development, and fibroblast migration. The lack of a unifying GO term or pathway among the top terms, plus some obsolete annotations, makes it unclear what common function ties the cluster. Therefore assign Unknown with confidence None. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0031321","count":1},{"id":"GO:0046854","count":1},{"id":"GO:1902635","count":1},{"id":"GO:0010256","count":1}]},{"hash":"1747769105002163558","title":"Hormone biosynthesis and reproductive development","description":"Most of the top GO terms point to biosynthesis of signaling molecules and lipids tied to endocrine function (retinoic acid, cortisol, prostaglandin, vitamin D) and to developmental processes in reproductive tissues (uterus, mammary gland). Although a few terms are less clearly related (insecticide metabolism, cesium ion response), the prevailing theme is hormone production and reproductive tissue development, justifying this label.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090350","count":4},{"id":"GO:0042904","count":4},{"id":"GO:0010760","count":4},{"id":"GO:0017143","count":4},{"id":"GO:0060065","count":4}]},{"hash":"243739065611289430","title":"Unknown","description":"The terms span neural differentiation, hormone signaling, stress responses, xenobiotics, platelet function, development in multiple organs, and various signaling pathways, with no clear, cohesive theme linking them. There are no edges or a dominant shared function, so a single interpretable label isn\u2019t supported. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904948","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0070527","count":1}]},{"hash":"967410607103487141","title":"Transmembrane Ion and Nutrient Transporters","description":"Based on the top GO terms, the cluster centers on transport across membranes for a variety of substrates (nitrates/nitrites, phosphate, sodium, vitamins, xenobiotics, and other nutrients), with one item highlighting neurotransmitter loading into synaptic vesicles. This pattern strongly indicates a group of membrane transport proteins rather than enzymes or structural components, justifying a label for transmembrane ion and nutrient transporters.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0035435","count":1},{"id":"GO:0042891","count":1},{"id":"GO:0035461","count":1}]},{"hash":"250468479761236739","title":"Aminoacyl-tRNA charging and translation regulation","description":"Most represented GO terms point to translation and tRNA aminoacylation (cysteinyl-, valyl-, methionyl-, isoleucyl-, leucyl-tRNA) and regulation of translational fidelity, indicating a cluster centered on the translation machinery and tRNA charging. Additional terms like mycothiol biosynthesis and detoxification suggest some peripheral stress-related associations, but the core theme is translation-related enzymes and processes.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0006423","count":1},{"id":"GO:0010125","count":1},{"id":"GO:0006438","count":1}]},{"hash":"329688391009620242","title":"Fertilization: Sperm\u2013Zona Pellucida Interactions","description":"The top GO terms cluster around sperm\u2013egg interaction and fertilization, including binding to the zona pellucida, penetration of the zona pellucida, and regulation of the acrosome reaction, which are core components of fertilization. Some accompanying terms reference glycosylation and extracellular matrix components that often feature in reproductive tissues, supporting a cohesive theme despite a few outliers in the annotations.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0007341","count":2},{"id":"GO:0005989","count":2},{"id":"GO:0060046","count":2},{"id":"GO:0007339","count":2}]},{"hash":"1349299087566248949","title":"Antigen Processing and T Cell Signaling","description":"The cluster shows strong enrichment for T cell receptor signaling, MHC class I antigen processing and presentation (TAP-dependent), and C-type lectin receptor signaling, all pointing to antigen recognition and T cell activation. The presence of proteasomal degradation terms ties into peptide generation for MHC I, and NF-kappaB signaling is a common immune-activation axis. Canonical/non-canonical Wnt signaling terms may reflect cross-talk with immune pathways, strengthening a unifying theme of antigen processing and T cell\u2013mediated responses.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010499","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0002223","count":5},{"id":"GO:0060071","count":5},{"id":"GO:0051436","count":5}]},{"hash":"1478021858119848287","title":"Chromatin organization and nucleosome assembly","description":"This cluster centers on chromatin-related processes, including nucleosome assembly, heterochromatin organization, and chromatin localization; several terms refer to chromatin structure and chromosome packaging, with a few obsolete annotations reflecting historical emphasis on chromatin regulation. The dominant theme is epigenetic/chromatin regulation rather than signaling or metabolism, grouping these proteins into a chromatin-assembly/regulation module.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007095","count":2},{"id":"GO:0098532","count":1},{"id":"GO:0006334","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0097298","count":1}]},{"hash":"1651594495869044848","title":"Mitochondrial energy production and calcium homeostasis","description":"The top GO terms cluster around mitochondrial function: proton transmembrane transport, proton motive force-driven ATP synthesis, and electron transport from ubiquinol to cytochrome c point to oxidative phosphorylation. Additional terms emphasize mitochondrial calcium import and homeostasis, as well as cellular responses to oxidative stress (hydrogen peroxide) and detoxification. A loosely related translation term is present but overall the dominant theme is mitochondrial energy metabolism and calcium/redox balance. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0051560","count":1},{"id":"GO:0036444","count":1},{"id":"GO:0006412","count":1}]},{"hash":"610085134437399277","title":"Unknown","description":"The top GO terms are highly diverse, including muscle development, circadian rhythm, kidney function, immune processes, and ubiquitination regulation, with no clear shared function or pathway. There are no edges to suggest a cohesive interaction network, so a single, interpretable label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0042748","count":2},{"id":"GO:0072156","count":2},{"id":"GO:2000176","count":2}]},{"hash":"966811082619872378","title":"Mitochondrial energy metabolism and translation","description":"Proteins in this cluster are linked to mitochondrial energy production (aerobic respiration, TCA cycle, mitochondrial electron transport, cytochrome complex assembly) and to mitochondrial protein synthesis (translation, tRNA aminoacylation, regulation of translational fidelity, Group I intron splicing). The co-occurrence of metabolic and mitochondrial translation/RNA processing terms suggests a cohesive mitochondrion-centric function, bridging respiration with mitochondrial protein synthesis.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":1},{"id":"GO:0017004","count":1},{"id":"GO:0006121","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0006412","count":1}]},{"hash":"237150578754611015","title":"Membrane transporters for ions and nutrients","description":"The cluster is enriched for transmembrane transport GO terms covering a range of substrates (nitrate/nitrite, phosphate, sodium, xenobiotics, vitamins) and related processes like neurotransmitter loading into vesicles, pointing to a group of membrane transporter proteins with broad substrate scope rather than a single pathway. This suggests a general transporter/uptake role across multiple small-molecule substrates. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0035461","count":2}]},{"hash":"1492403482908837617","title":"GPCR Signaling with cAMP/cGMP","description":"The GO terms are dominated by G protein-coupled receptor signaling and regulation of second messengers (cAMP and cGMP), including adrenergic effects on heart contraction and opioid receptor signaling that modulate adenylate cyclase. While a few terms touch on development or tissue-specific processes, the shared thread is GPCR-driven signaling and its modulation via cyclic nucleotide pathways.","confidence":"Medium","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060658","count":2},{"id":"GO:0010759","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0007199","count":2}]},{"hash":"2111600815195476269","title":"Nuclear transcription and chromatin remodeling","description":"This cluster centers on nuclear gene expression control, with terms spanning transcription regulation (negative regulation of RNA Pol II), transcription initiation-coupled chromatin remodeling, and chromatin/heterochromatin dynamics (centromeric cohesion, silent mating-type heterochromatin formation). Also includes RNA export from the nucleus (mRNA and ribosomal subunit export), tying together transcription, RNA processing, and chromatin state. A few developmental terms appear, but the dominant theme is nuclear transcriptional regulation and chromatin remodeling.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0070602","count":1}]},{"hash":"528149443010774762","title":"Neural development and maturation","description":"This cluster is dominated by embryonic/neural terms, especially in utero embryonic development, neuron maturation, and CNS projection neuron axonogenesis, indicating roles in neural development and maturation during embryogenesis. While there are ancillary terms related to other developing tissues (adipose, adrenal, heart, cartilage), the strongest and most consistent signal revolves around neural development, so the label captures the primary function of the cluster. ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0042551","count":4},{"id":"GO:1904179","count":2},{"id":"GO:0030325","count":2},{"id":"GO:0003430","count":2}]},{"hash":"1947598353622494680","title":"Th2 Immunity and Developmental Differentiation","description":"The top GO terms show strong enrichment for interleukin-4 response and Th2 differentiation, indicating a clear immune signaling theme. There are also several development- and fate-determination terms (endodermal fate, otic vesicle morphogenesis, mammary gland development, bronchus cartilage development, atrial septum morphogenesis) plus transcriptional regulation, suggesting a broader link between immune signaling and developmental differentiation via shared transcription programs. This combination supports labeling the cluster as involving Th2 immune processes together with developmental differentiation, hence the name.","confidence":"Medium","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071353","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0045654","count":3},{"id":"GO:0003290","count":3},{"id":"GO:0007493","count":3}]},{"hash":"191681997224164037","title":"Energy Metabolism and Signaling Regulation","description":"The cluster blends core metabolic processes (gluconeogenesis, glycolysis) with diverse signaling pathways (T cell receptor, C-type lectin receptor, Wnt PCP) and processes like protein turnover and cellular remodeling, suggesting a set of proteins that coordinate metabolism with broad regulatory signaling rather than a single specialized pathway.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903298","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0032889","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0061621","count":2}]},{"hash":"2073460205846368251","title":"Mitotic spindle and cell cycle regulation","description":"This cluster is dominated by GO terms describing mitosis and the cell cycle, including meiotic cell cycle, spindle microtubule\u2013kinetochore attachment, regulation of mitotic chromosome condensation, and mitotic intra-S DNA damage checkpoint signaling. While there are some developmental terms (mesoderm development, branching morphogenesis) present, the core theme centers on cell division and its control.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022011","count":6},{"id":"GO:0051321","count":6},{"id":"GO:0051315","count":6},{"id":"GO:0010288","count":6},{"id":"GO:0007498","count":6}]},{"hash":"1994409482855432363","title":"Unknown","description":"The top GO terms are too diverse to reveal a single cohesive function: immune signaling (peripheral T cell tolerance, interferon response, Fas signaling regulation), apoptosis pathways, muscle development (skeletal muscle and myotube development), endothelial migration, hematopoietic differentiation, and mammary gland proliferation. With no shared pathway or process evident and only single-term associations, there is no reliable thematic label beyond Unknown.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":1},{"id":"GO:0002458","count":1},{"id":"GO:0034340","count":1},{"id":"GO:1902044","count":1},{"id":"GO:0048642","count":1}]},{"hash":"478247001148063155","title":"Proteolysis-Driven tissue remodeling","description":"The top GO terms cluster around peptide and protein catabolism (bradykinin, neuropeptides, general proteolysis) and matrix remodeling activities (collagen catabolic process, bone resorption), with some development-related terms. The dominant common theme is proteolytic remodeling of tissue extracellular components, so this label fits best.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0030574","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0060448","count":2}]},{"hash":"881177404778320244","title":"Unknown","description":"The top terms are a mix of diverse small-molecule metabolic processes (e.g., methane, methanol, cholesterol, glycine betaine, anthocyanin biosynthesis) and a few development-related terms (pituitary/gland, midbrain dopaminergic neuron differentiation, cervix development), with no clear shared pathway or function. There are no edges to support a cohesive function, so a confident label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0021983","count":2},{"id":"GO:0009718","count":2},{"id":"GO:0046188","count":2},{"id":"GO:0008203","count":2}]},{"hash":"524232704290667108","title":"Innate and Adaptive Immune Activation with Antigen Presentation","description":"This cluster\u2019s GO terms center on defense against bacteria and innate immunity, plus adaptive processes such as antigen processing and presentation via MHC class Ib, B cell activation/affinity maturation, and regulation of CD8 T cell activation. Additional terms for complement activation and phagocytosis support a role in pathogen recognition and clearance, indicating a cohesive immune surveillance and antigen-presentation function bridging innate and adaptive responses.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0045087","count":3},{"id":"GO:2001186","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0048006","count":2}]},{"hash":"1432513871221048271","title":"Neuronal signaling and neuromuscular development","description":"The top GO terms center on neuronal communication (neurotransmitter secretion; regulation of synaptic potentiation) and development of neural/muscular tissues (myoblast fusion; peripheral nervous system myelination), with added hints of signaling regulation (protein kinase activity). Together these suggest a cluster of proteins involved in neural signaling and peripheral neuromuscular development, rather than a single, narrowly defined pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030948","count":2},{"id":"GO:0097274","count":1},{"id":"GO:0071574","count":1},{"id":"GO:1900271","count":1},{"id":"GO:0090151","count":1}]},{"hash":"110926756397288428","title":"Nuclear RNA processing and transcription control","description":"The top GO terms point to nuclear RNA processing (splicing), ribosomal subunit export, and regulation of transcription initiation, implying a nucleus-centered cluster tied to gene expression and genome regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0032298","count":1},{"id":"GO:1903026","count":1}]},{"hash":"1565959856662798782","title":"RNA Processing and Translation Initiation","description":"The cluster shows a convergence of RNA processing and translation-related GO terms: formation of translation preinitiation complex, eIF4F complex assembly, translation reinitiation, small-subunit processome assembly, and splicing regulation. These points suggest a shared role in RNA metabolism and the initiation of protein synthesis. Some terms (like intestinal epithelial development or obsolete entries) appear as less relevant noise, but the core signal centers on RNA processing and translation machinery.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0060576","count":1},{"id":"GO:0016267","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0001731","count":1}]},{"hash":"778791490986849131","title":"Signaling and cytoskeletal remodeling","description":"The cluster\u2019s top GO terms converge on cellular responses to signaling molecules (cAMP and cGMP), responses to mechanical stimuli, cell migration, and actin filament bundle assembly, suggesting a shared theme of stimulus-triggered signaling coupled to cytoskeletal dynamics. Some terms like genitalia development and GABA secretion are less directly connected and may reflect broader or noisy annotations, but the central pattern points to signal transduction linked to cytoskeletal remodeling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071321","count":2},{"id":"GO:0016477","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0048806","count":2},{"id":"GO:0071320","count":2}]},{"hash":"79270585610703417","title":"Regulation of signaling and development","description":"The terms are largely about regulation (negative or positive) of signaling pathways (cGMP, Rac, peptidyl-threonine phosphorylation, even cAMP) and include development-related processes (dendrite morphogenesis, glomerulus development) and apoptotic regulation. This suggests the proteins function together as regulators of signaling and developmental processes rather than a single specific pathway, hence the label.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050774","count":2},{"id":"GO:2000670","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0035021","count":2},{"id":"GO:2000064","count":2}]},{"hash":"2076318556826344164","title":"Drug and lipid transporters","description":"The top GO terms are dominated by various transport-related processes, including drug transport (daunorubicin, doxorubicin, antibiotic response) and translocation of lipids and related molecules (ceramide, phospholipid, taurine, heme, molybdate). This pattern suggests the proteins function as transporters or membrane translocation components for diverse cargos, rather than a single enzymatic pathway. The zero edges imply no direct interactions in this dataset, but the shared function in membrane transport ties the cluster together; the stem cell proliferation term appears as a minor outlier. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0099040","count":2},{"id":"GO:0015689","count":2},{"id":"GO:0072089","count":2},{"id":"GO:0015734","count":2}]},{"hash":"188586664334075603","title":"RNA processing and telomere maintenance","description":"The cluster\u2019s GO terms are dominated by RNA processing, export, stability, and decay (mRNA export, RNA stability regulation, nonsense-mediated decay, RNA methylation) along with telomere-related functions (telomere maintenance, telomerase complex assembly). This suggests a functional linkage between RNA metabolism and telomere biology, with a possible note on G-quadruplex DNA and meiotic spindle context as related but secondary features.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:0090306","count":1},{"id":"GO:1904354","count":1},{"id":"GO:0071919","count":1},{"id":"GO:1905324","count":1}]},{"hash":"1211749497375870081","title":"Triglyceride and Phospholipid Catabolism","description":"The top GO terms are dominated by triglyceride catabolic processes, triglyceride mobilization, and triglyceride acyl-chain remodeling, along with phosphatidylcholine and phosphatidylethanolamine catabolic processes. This pattern points to a lipid metabolism cluster focused on breakdown and remodeling of triglycerides and phospholipids. A few terms related to ubiquitination and cell cycle/development appear but do not override the lipid-centric theme.","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0034638","count":3},{"id":"GO:0006642","count":3},{"id":"GO:2000480","count":3},{"id":"GO:0010898","count":3}]},{"hash":"1586774747412112304","title":"Ubiquitin-mediated regulation of cell division","description":"The cluster centers on ubiquitin-related processes (K6-linked ubiquitination, autoubiquitination) and mitotic/chromatin functions (CENP-A chromatin assembly, microtubule severing, cell division), with additional links to ERAD and ER-to-Golgi transport that fit ubiquitin signaling in protein quality control during cell-cycle events. This points to a cohesive theme of ubiquitin-driven control of cell division and related trafficking. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0051260","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0006888","count":2}]},{"hash":"432431513824473649","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":2},{"id":"GO:0045214","count":2},{"id":"GO:2001137","count":2},{"id":"GO:0007182","count":2},{"id":"GO:0043029","count":2}]},{"hash":"2197050485095762927","title":"Unknown","description":"The GO terms are highly diverse, spanning energy metabolism, nucleotide/RNA modification, ribosome export, lipid biosynthesis, transport, xenobiotic response, and aging. There is no single unifying theme that ties these functions together, suggesting a heterogeneous cluster rather than a cohesive biological module.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015986","count":1},{"id":"GO:0099132","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0000056","count":1},{"id":"GO:0006656","count":1}]},{"hash":"1210265372526728962","title":"Transcription and RNA processing regulators","description":"This cluster centers on transcriptional control (DNA-templated transcription, antitermination, termination regulation) and RNA metabolism (CRD-mediated mRNA stabilization, pre-miRNA processing, miRNA catabolic process), indicating proteins that regulate gene expression at both transcriptional and post-transcriptional levels, including miRNA pathways. There are some additional signals related to stress responses and development, but the core theme is gene expression regulation through transcription and RNA processing.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070934","count":2},{"id":"GO:1901724","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0031564","count":2},{"id":"GO:1902219","count":2}]},{"hash":"1508326034482451772","title":"Paranodal and Juxtaparanodal Axon Organization","description":"The GO terms most represented (paranodal junction assembly; protein localization to the juxtaparanode region of the axon) point to a role in organizing axon segments and nodal/paranodal domains, with additional neuronal signaling cues such as synaptic plasticity. Some non-neuronal terms (mitotic spindle, immune signaling) appear as outliers, likely due to multifunctionality in the proteins or broad annotations, but the dominant signal supports axonal domain organization.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0071318","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0030913","count":2}]},{"hash":"1367120999425107320","title":"Membrane transport and ion homeostasis","description":"Reasoning: The top GO terms are dominated by transmembrane transport for various substrates (fructose, sulfate, chloride, oxalate) and processes related to membrane potential and intracellular pH. This points to a cluster of proteins involved in membrane transport and ion balance, despite some unrelated terms that may reflect noise or broad annotations. Therefore, the core theme is transporter activity and ion homeostasis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":1},{"id":"GO:0015755","count":1},{"id":"GO:1902358","count":1},{"id":"GO:0042391","count":1},{"id":"GO:1902476","count":1}]},{"hash":"1036036806694899805","title":"Neural development and centrosome regulation","description":"This cluster combines neural development signals (neural tube closure, dendritic spine morphogenesis, behavioral response to cocaine) with centrosome biology (centrosome cycle, positive regulation of centrosome duplication), suggesting a theme of neural development that intersects with cellular organization and centrosome dynamics.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010825","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0048148","count":2},{"id":"GO:0060997","count":2}]},{"hash":"137258051318069861","title":"Transmembrane Ion and Sugar Transporters","description":"This cluster is dominated by GO terms for transport across membranes, especially ion transport (sodium, potassium, phosphate, nitrate) and sugar transport (fructose, trehalose, sialic acid, etc.), with a note of neurotransmitter loading into synaptic vesicles suggesting transporter-related roles in neurons. The common theme is membrane transporter activity for ions and sugars, with occasional neuron-specific transport processes, justifying the label.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0070715","count":2},{"id":"GO:0006817","count":2},{"id":"GO:0006004","count":2}]},{"hash":"1825135440110032283","title":"Organogenesis and neural-cardiovascular development","description":"The top GO terms cluster around embryonic organ formation and differentiation of neural, heart, and vascular tissues, including heart tube formation, sinoatrial node differentiation, circadian heart rate regulation, neurogenesis, retinal and auditory receptor fate, and lung vasculature development. This suggests a broad developmental program spanning multiple organ systems, rather than a single pathway.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042668","count":5},{"id":"GO:0003144","count":5},{"id":"GO:0003407","count":5},{"id":"GO:0060426","count":5},{"id":"GO:0072050","count":5}]},{"hash":"1036965795874914856","title":"Redox Stress Response and Metabolic Regulation","description":"The cluster features redox-related terms (NADH oxidation, oxidation-reduction processes) alongside nitrosative stress response and broader stress responses (to antineoplastic agents, LPS), plus metabolic pathways (D-xylulose 5-phosphate biosynthesis, retinol metabolism). This pattern suggests proteins that cope with oxidative/nitrosative stress while adjusting metabolism and signaling under external challenges.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006116","count":3},{"id":"GO:0051409","count":3},{"id":"GO:0097327","count":3},{"id":"GO:1900116","count":3}]},{"hash":"726413644227293645","title":"Cell Cycle Regulation and Stress Response","description":"These proteins cluster around mechanisms that control cell proliferation (G2/M transition, general cell cycle regulation) and cellular stress responses (ER unfolded protein response and autophagy initiation via ULK1). Additional terms touch metabolic signaling and tissue-specific proliferation, suggesting a broader growth-regulation theme despite some yeast-like transcriptional regulation signals. Overall, the group represents growth control and stress adaptation pathways rather than a single cohesive complex.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000411","count":2},{"id":"GO:0010389","count":2},{"id":"GO:0033601","count":2},{"id":"GO:0033598","count":2},{"id":"GO:0030968","count":2}]},{"hash":"894065904697273480","title":"Secretory pathway in proliferating cells","description":"The top terms strongly point to ER-to-Golgi and Golgi-to-ER vesicle transport (COPII budding, ER-Golgi trafficking), i.e., the secretory pathway. At the same time, several terms relate to cell growth and division (mitotic cell cycle, mitotic spindle assembly, cell division, ribosome biogenesis), suggesting these trafficking processes occur in proliferating cells and are part of broader growth-related cellular machinery. This combination supports a label around secretory trafficking intertwined with cell proliferation, hence the chosen name.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1145401390999064009","title":"Developmental Processes and DNA Damage Response","description":"These GO terms cluster around embryonic development (heart tube, pharynx, lung vasculature, neuronal development, oocyte growth) and DNA damage response signaling (p53 mediation, G2 checkpoint). This suggests a theme of developmental regulation coupled with genome-stress signaling rather than a single, uniform pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071930","count":3},{"id":"GO:0030330","count":3},{"id":"GO:0035050","count":2},{"id":"GO:0021758","count":2},{"id":"GO:0060465","count":2}]},{"hash":"463205461693042947","title":"Adaptive immune gene regulation and protein turnover","description":"This cluster centers on adaptive immunity terms (adaptive immune response, V(D)J recombination) and includes transcriptional and chromatin regulation (DNA-templated transcription, DNA damage signaling, histone methylation) as well as ubiquitin\u2013proteasome\u2013mediated protein turnover, suggesting a theme of immune gene regulation coupled with protein turnover, despite no observed interactions among proteins.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0046676","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0016567","count":2}]},{"hash":"996205082618699315","title":"Transcriptional Regulation and Apoptosis via Hippo Signaling","description":"Top GO terms indicate a core of transcriptional control (DNA-templated transcription) and apoptotic regulation, with a strong emphasis on Hippo signaling and related growth-control/regulatory pathways (e.g., negative regulation of signaling, myoblast fusion in development). This combination suggests a cohesive theme around how transcriptional programs govern cell fate, growth, and survival, particularly via Hippo pathway\u2013mediated regulation.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0007520","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0043619","count":2}]},{"hash":"850216820525477703","title":"RNA Splicing and Translation Initiation Machinery","description":"The top GO terms cluster around spliceosome assembly and splicing regulation (regulatory ncRNA-mediated gene silencing; regulation of alternative mRNA splicing via spliceosome; small-subunit processome assembly) and, separately, components of translation initiation and preinitiation complex formation (eIF4F complex assembly; formation of translation preinitiation complex; translation reinitiation), plus mRNA export. This suggests a cohesive group of proteins involved in RNA processing and the setup for translation, i.e., splicing and translation initiation machinery.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0097010","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0034462","count":3}]},{"hash":"1199666166156860843","title":"Membrane Transporters for Ions and Nutrients","description":"The top GO terms are dominated by transmembrane transport of ions (potassium, nitrate, phosphate, sodium-coupled) and small nutrients/sugars (fructose, trehalose, fucose, sialic acid, vitamins), with a supporting vesicular transport term (neurotransmitter loading). This points to a cohesive theme of membrane transport activity for ions and metabolites, including vesicular transport related to neurotransmission, hence the label.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0098700","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0070715","count":3},{"id":"GO:0006817","count":3}]},{"hash":"641064290947861640","title":"Cellular stress response and cytoskeletal organization","description":"The top GO terms point to stress-response signaling, including NF-kappaB activation and hypoxia response, along with regulation of apoptosis, plus a component of cytoskeletal dynamics via actin filament organization. While some terms reflect unrelated developmental contexts, the core pattern across the cluster centers on stress signaling and cytoskeletal remodeling. This supports a label around stress-responsive signaling coupled with cytoskeletal organization.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0097274","count":1},{"id":"GO:0071574","count":1}]},{"hash":"642564598973008602","title":"Neuronal endocytosis and vesicle cycling","description":"The top GO terms point to membrane trafficking processes in neurons, including regulation of endocytic recycling, synaptic vesicle uncoating, and vacuole organization, along with phosphoinositide dephosphorylation/catabolism. These collectively suggest vesicle trafficking and membrane remodeling at synapses as the shared function, with additional hints of neuron-glia interactions affecting myelination and axon growth. Confidence: High","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043058","count":1},{"id":"GO:2001135","count":1},{"id":"GO:0048681","count":1},{"id":"GO:0031642","count":1},{"id":"GO:0007033","count":1}]},{"hash":"1952689586098672803","title":"Ribosome biogenesis and translation initiation","description":"The top terms center on translation initiation, such as eukaryotic translation initiation factor 4F complex assembly and formation of the translation preinitiation complex, plus the small-subunit processome assembly that ties to ribosome biogenesis. Additional terms about translation reinitiation and RNA processing/splicing/ export suggest a broader coordination of mRNA maturation with translation. Overall, the cluster appears to represent components involved in assembling the ribosome and initiating translation, with linked RNA processing steps.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097010","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1905663","count":2}]},{"hash":"2169939623230314926","title":"ER protein folding and quality control","description":"The proteins in this cluster predominantly relate to the unfolded protein response, ER stress, and the handling of misfolded proteins (ER chaperone activity, ERAD, and translocation to the ER membrane), which together describe ER-associated protein folding and quality control. While a few terms (e.g., DNA replication) are present, the dominant signal is ER-focused protein maintenance and surveillance.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0090084","count":3},{"id":"GO:0006986","count":3}]},{"hash":"295018551087587317","title":"RNA processing and nuclear export regulation","description":"The top terms include mRNA splicing, regulation of mRNA export from the nucleus, and regulation of tRNA export, indicating a central theme of nuclear RNA processing and transport. While other terms (e.g., GTPase regulation, forebrain development, Hippo signaling, apoptosis) appear, they are less cohesive with a single function, so the primary signal is nuclear RNA processing/export regulation, with possible ancillary regulatory connections such as ubiquitination and apoptosis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0035331","count":2},{"id":"GO:0010768","count":2}]},{"hash":"909984302783487689","title":"Epithelial barrier formation and calcium transport","description":"This cluster links several barrier-related processes (establishment of glial blood-brain barrier; septate junction assembly) with epithelial tube development and calcium handling (tube size regulation in the tracheal system; calcium ion transport). The combination suggests proteins participating in epithelial barrier integrity and calcium homeostasis, across nervous-system\u2013associated barriers and tracheal epithelium.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060857","count":1},{"id":"GO:0070296","count":1},{"id":"GO:0045671","count":1},{"id":"GO:0035151","count":1},{"id":"GO:0034765","count":1}]},{"hash":"555194857768225976","title":"ER-Golgi Trafficking and Membrane Targeting","description":"The prominent GO terms point to secretory pathway processes: ER-Golgi vesicle transport, retrograde transport between Golgi and ER, and protein retention in the ER lumen, along with localization to the plasma membrane. These together suggest a focus on protein processing and membrane trafficking. Some cell-cycle related terms are present but do not dominate the cluster\u2019s theme, so the main signal is trafficking and membrane targeting.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000321","count":2},{"id":"GO:0035331","count":2},{"id":"GO:0030866","count":2},{"id":"GO:0031573","count":2},{"id":"GO:0006621","count":1}]},{"hash":"2020114428294805753","title":"RNA Processing and Translation Initiation","description":"The top GO terms converge on RNA metabolism and translation initiation, including eIF4F complex assembly and preinitiation complex formation (translation initiation), small-subunit processome assembly (rRNA processing), translation reinitiation, and regulation of mRNA splicing/export. Although a few terms are obsolete or virus-specific, the dominant theme is coordinated RNA processing and the initiation of translation. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097010","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1905663","count":1}]},{"hash":"727625706026907154","title":"Adaptive Immune Regulation and Isotype Switching","description":"The cluster centers on adaptive immune functions: regulation of lymphocyte differentiation (B and T cells), regulation of T cell proliferation, and isotype switching (IgG/IgE), with additional signaling control via NF-kappaB and moderation of inflammatory responses, suggesting coordinated regulation of humoral and cellular immunity.","confidence":"High","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":1},{"id":"GO:0045619","count":1},{"id":"GO:0002761","count":1},{"id":"GO:0048302","count":1},{"id":"GO:0002829","count":1}]},{"hash":"1908763578627296757","title":"Proteostasis and ribosome biogenesis","description":"The terms point to protein quality control and modification (sumoylation, aggresome assembly, ERAD) combined with ribosome biogenesis (SSU rRNA maturation, small subunit assembly). The cluster seems centered on maintaining protein homeostasis while coordinating ribosome production, with related stress signaling aspects (autophagy regulation, TNF signaling, insecticide response). ","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0014070","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0070842","count":3},{"id":"GO:0000028","count":3},{"id":"GO:0030433","count":3}]},{"hash":"826612440612845294","title":"Fatty acid uptake and metabolism","description":"Most GO terms point to fatty acid handling, including import/transport of long- and medium-chain fatty acids across the plasma membrane and fatty-acyl-CoA metabolic steps, suggesting a cluster focused on lipid uptake and processing. Some outliers (siderophore biosynthesis, malonate catabolism, and an obsolete oxidation-reduction term) are present, but the dominant signal is fatty acid uptake and metabolism.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015911","count":1},{"id":"GO:0036112","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0019290","count":1}]},{"hash":"337053494485033338","title":"Unknown","description":"The top terms cover tRNA processing, lactation, dosage compensation, outer ear morphogenesis, germ-line stem cell division, viral modulation of host proteins, neuronal apoptosis, RNA silencing, and apoptotic signaling. This set spans diverse, largely unrelated biological processes with no clear shared function, so there is no cohesive theme to label the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0007595","count":2},{"id":"GO:0009047","count":1},{"id":"GO:0042473","count":1},{"id":"GO:0048132","count":1}]},{"hash":"200437324686734657","title":"Ribosome Biogenesis and Translation Regulation","description":"The cluster is strongly enriched for ribosome biogenesis, ribosomal subunit export, and tRNA aminoacylation, along with mRNA transport and TORC1 signaling, pointing to roles in ribosome assembly and translational control, possibly tied to nutrient/growth signaling. Some terms like cell division and conjugation appear contextually but do not drive the main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1598565869592003499","title":"Meiosis-Associated Chromatin and Nuclear Transport","description":"Top terms suggest a focus on meiotic chromatid cohesion, spindle elongation, chromatin assembly, nuclear pore complex assembly, and mRNA transport, indicating a theme of nuclear processes and chromatin regulation during meiosis. Some terms (lipid transport, GTPase/kinase regulation) are more general and less specific to meiosis, but the combination still points to meiotic chromatin dynamics and nuclear transport.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006869","count":1},{"id":"GO:0000188","count":1},{"id":"GO:0051754","count":1},{"id":"GO:0006335","count":1}]},{"hash":"1598348104436532025","title":"Lipid biosynthesis and membrane maintenance","description":"This cluster is dominated by lipid-related processes: unsaturated fatty acid biosynthesis, ergosterol biosynthesis, sphingolipid (mannosyl-inositol phosphorylceramide) metabolism, and lipid-rich outcomes like myelin maintenance and sebaceous gland differentiation. While some terms (nitrate assimilation, nitric oxide biosynthesis) are broader metabolic signals, the strongest shared theme is lipid metabolism and membrane-associated processes.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":4},{"id":"GO:0006636","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0006809","count":4}]},{"hash":"1344330300557663239","title":"RNA processing and mRNA decay","description":"The proteins cluster around RNA metabolism, with strong cues for splicing (spliceosome, snRNP assembly), tRNA/mRNA processing, and mRNA turnover (P-body assembly, deadenylation-dependent decapping, stress-related mRNA stability). While a few chromatin-related terms appear, the dominant theme is RNA processing and decay, making this label representative of the cluster.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0010610","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0030490","count":2}]},{"hash":"1484928537238565820","title":"Protein quality control and ER stress response","description":"The top GO terms point to protein folding/refolding, unfolded protein response, and ER-associated degradation, along with regulatory touches on protein modification and trafficking. This pattern suggests a cohesive theme around maintaining protein homeostasis under stress, with some peripheral terms that may reflect broader cellular quality-control activities.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0014718","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0033234","count":2},{"id":"GO:0031204","count":1}]},{"hash":"894941111192596478","title":"Unknown","description":"The GO terms include two clearly mitochondrial-related terms (positive regulation of mitochondrial membrane potential and positive regulation of cardiolipin metabolic process) but also a mix of unrelated processes such as ER-associated degradation, mitotic cytokinesis, translation, TLR3 signaling, and dopaminergic synaptic transmission. There is no consistent biological theme linking most terms across the four proteins. The combination suggests a small, potentially multi-functional cluster, but without a dominant shared function it is not possible to assign a clear, concise label beyond Unknown.","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0010918","count":2},{"id":"GO:0000281","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0002184","count":1}]},{"hash":"1772679299128551331","title":"Mitochondrial dynamics and cardiolipin metabolism","description":"The top GO terms cluster around mitochondrial processes: stress-induced mitochondrial fusion, mitochondrial inheritance, and cardiolipin metabolic process, with related lipid localization. Although a few terms touch on neurons or immune signaling, the dominant themes are mitochondrial dynamics and lipid/homeostasis linked to mitochondria, suggesting this cluster reflects mitochondrial membrane biology and function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034141","count":2},{"id":"GO:0032226","count":2},{"id":"GO:1901585","count":2},{"id":"GO:0045541","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1849652927628396200","title":"Nucleotide Biosynthesis and Salvage","description":"This cluster is dominated by GO terms for ADP biosynthetic process, nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, ITP metabolism, AMP salvage, CDP biosynthetic process, and GTP metabolism, indicating a core function in nucleotide metabolism and salvage; tissue development terms (brain, liver) appear incidental.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006172","count":4},{"id":"GO:0046940","count":4},{"id":"GO:0015951","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0046041","count":4}]},{"hash":"732553930212575676","title":"Mitochondrial protein import and inner-membrane assembly","description":"The top GO terms are dominated by mitochondrial processes (protein import into the matrix and protein insertion into the inner mitochondrial membrane), with supporting signals of mitochondrial inheritance and membrane-associated lipid metabolism, suggesting this cluster centers on mitochondrial protein trafficking and membrane biogenesis.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":1},{"id":"GO:0001302","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1}]},{"hash":"2299924037075554285","title":"Nucleolar Transcriptional Repression and Differentiation Inhibition","description":"This cluster is driven by GO terms for negative regulation of transcription (including DNA-templated transcription) and specialized nucleolar/chromatin processes (rDNA repeats and heterochromatin), plus suppression of differentiation pathways (myotube/osteoblast) and androgen receptor signaling. The shared theme appears to be transcriptional repression with a focus on nucleolar chromatin dynamics, with an additional hint from aggresome-related terms related to protein quality control under stress.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010832","count":4},{"id":"GO:0045668","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060766","count":4},{"id":"GO:0034503","count":3}]},{"hash":"1364275013665128063","title":"Translation initiation and ribosome biogenesis","description":"The top GO terms cluster around translation initiation and ribosome assembly: eIF4F complex assembly, formation of translation preinitiation complex, and translation itself, plus small-subunit processome assembly. These together point to proteins involved in starting translation and building ribosomes. A few terms about mRNA splicing/export and viral reinitiation are present but secondary to the core theme. ","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2}]},{"hash":"2087949652005471337","title":"Unknown","description":"The GO terms are highly diverse and do not converge on a single biological function. They include stress responses (antibiotic, cadmium, high light, reactive oxygen species), various developmental processes (thymus, placenta), and unrelated activities (myelin maintenance, kinetochore localization), making it unclear what cohesive theme ties the proteins together.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0032287","count":3},{"id":"GO:0032930","count":3},{"id":"GO:0048538","count":3}]},{"hash":"1211273979827222231","title":"Neuronal development and signaling regulation","description":"This cluster centers on forebrain development and neuron-specific processes (neuron apoptotic process), with supporting signals from transcriptional regulation, RNA modification, phosphorylation signaling, and ubiquitin ligase activity, suggesting a role in neural development and neural signaling regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0071902","count":3}]},{"hash":"2072386799675024424","title":"Oxidative stress response and redox regulation","description":"This cluster\u2019s GO terms largely point to redox biology, including detoxification of cellular oxidants, response to hydrogen peroxide, peptidyl-cysteine oxidation, deglutathionylation, and protein repair. Together these suggest a function in managing oxidative stress and maintaining redox balance, with a few additional terms touching on broader signaling and protein maintenance that are less central to the core theme. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":1},{"id":"GO:0070301","count":1},{"id":"GO:0042345","count":1},{"id":"GO:0030091","count":1},{"id":"GO:0045494","count":1}]},{"hash":"1712188511832831960","title":"Microtubule spindle assembly and cytoskeletal organization","description":"These proteins share a theme around microtubule-based cytoskeletal dynamics, highlighted by GO terms for mitotic spindle assembly, metaphase chromosome alignment, and microtubule polarity, plus-end/ minus-end directed transport, and actomyosin ring assembly. The presence of chloroplast movement terms suggests plant-specific cytoskeletal functions but still centers on microtubule organization and spindle-related processes, justifying a label focused on microtubule spindle assembly and cytoskeletal organization.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0031534","count":1},{"id":"GO:0072383","count":1},{"id":"GO:0048364","count":1}]},{"hash":"142509706498183273","title":"Unknown","description":"The terms span cell cycle regulation, stress responses, development, and inflammatory processes, with no single dominant function tying all proteins together, so a cohesive label is not justifiable.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":1},{"id":"GO:0071502","count":1},{"id":"GO:2000194","count":1},{"id":"GO:0002526","count":1},{"id":"GO:0035914","count":1}]},{"hash":"2061440772780300040","title":"Splicing and Translation Initiation","description":"This cluster is enriched for spliceosome-mediated mRNA processing and splicing regulation, together with components of translation initiation and preinitiation complex formation, plus small-subunit processome-related steps and mRNA export. The GO terms point to a module linking RNA maturation and export with the initiation of translation, indicating a coordinated RNA-centric function. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":4},{"id":"GO:0097010","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1603521290399749019","title":"Unknown","description":"The GO terms present are from a wide array of developmental processes across different organisms (root, eye, nose, mesectoderm, heart field) with no clear shared function or pathway linking the proteins. Because there is no cohesive theme, a generic Unknown label with no confidence in a specific functional grouping is appropriate.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048527","count":1},{"id":"GO:0003380","count":1},{"id":"GO:0042462","count":1},{"id":"GO:0010540","count":1},{"id":"GO:0071380","count":1}]},{"hash":"1141299657752978415","title":"Unknown","description":"The GO terms span immune differentiation, neuronal migration, glycosylation, and metabolism with no single dominant function; combined with obsolete terms and no edges linking proteins, there isn\u2019t a coherent theme to name a specific function. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002361","count":1},{"id":"GO:0021799","count":1},{"id":"GO:0042355","count":1},{"id":"GO:0002522","count":1},{"id":"GO:0036071","count":1}]},{"hash":"1097779186216989370","title":"NF-kB and TNF inflammatory signaling","description":"The proteins show enrichment for inflammatory signaling terms, notably canonical NF-kappaB activation, TNF-mediated signaling, and NOS regulation, along with LPS signaling and T-helper cell differentiation. A couple of terms (synaptic transport, ERAD) are less directly linked, but the dominant theme is immune/inflammatory signaling pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050999","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0045623","count":2}]},{"hash":"83420660332627623","title":"Ribosome biogenesis and translation initiation","description":"The dominant GO terms describe steps in forming the translation preinitiation complex, translation reinitiation, and assembly of the eIF4F complex, plus small-subunit processome assembly, which together point to ribosome biogenesis and initiation of protein synthesis. Additional terms related to mRNA export and spliceosome-associated splicing support a broader RNA-processing theme tied to gene expression. Overall, these proteins appear to cluster around RNA metabolism and translation machinery, justifying a label focused on ribosome biogenesis and translation initiation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0046549","count":2},{"id":"GO:0097010","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1173249125031536214","title":"Protein quality control and trafficking","description":"These terms point to cellular protein quality control and trafficking: heat stress response, aggresome formation, ERAD, cytosolic microtubule\u2013driven transport, and nuclear pore localization. Ribosome biogenesis and rRNA maturation may reflect general translation machinery activity under stress. Together, they describe proteome maintenance rather than a single enzymatic pathway.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010286","count":4},{"id":"GO:0070842","count":4},{"id":"GO:0090204","count":4},{"id":"GO:0031122","count":4},{"id":"GO:0000028","count":4}]},{"hash":"1542530821383708197","title":"Hormone-related development and metabolism","description":"The cluster centers on developmental processes in multiple tissues (hepatocyte differentiation, mammary gland and uterus development) and hormone/metabolic pathways (retinoic acid biosynthesis, cortisol biosynthesis, vitamin D catabolism), with supplementary metabolism-related terms. This points to a theme of development intertwined with hormonal and metabolic regulation across tissues, justifying the label. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070365","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0090350","count":2},{"id":"GO:0042904","count":2},{"id":"GO:0010760","count":2}]},{"hash":"1712448636769713545","title":"Unknown","description":"The GO terms across the four proteins are scattered across neural development, immune cell apoptosis, GPCR/small-GTPase signaling, hormone biosynthesis, organ development, and pigment formation. While many are about regulation of processes or signaling, there isn\u2019t a clear, cohesive biological theme tying these proteins together in one function or pathway. Thus a specific, representative label cannot be confidently assigned.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050774","count":2},{"id":"GO:2000670","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0035021","count":2},{"id":"GO:2000064","count":2}]},{"hash":"482721661946866848","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0000028","count":1},{"id":"GO:2000623","count":1}]},{"hash":"85351753196633344","title":"Multiorgan organogenesis and tissue differentiation","description":"This cluster features GO terms spanning development across several organs and tissues (heart, pharynx, lung vasculature, putamen, neuron migration, oocyte growth) as well as regulatory processes affecting differentiation and cell cycle checkpoints. The shared thread is broad developmental differentiation rather than a single tissue or pathway, justifying a general label of organogenesis/tissue differentiation. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035050","count":1},{"id":"GO:0021758","count":1},{"id":"GO:0060465","count":1},{"id":"GO:0060426","count":1},{"id":"GO:0001555","count":1}]},{"hash":"53393696918200196","title":"ER Targeting and Unfolded Protein Response","description":"The GO terms are dominated by pathways for proteins targeting to membranes (SRP-dependent and post-translational targeting) and responses to unfolded proteins/ER stress, suggesting a cluster of proteins involved in membrane protein biogenesis and quality control; a couple of unrelated terms appear, but the main signal fits ER targeting and folding stress.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":2},{"id":"GO:0006616","count":1},{"id":"GO:1902037","count":1},{"id":"GO:0034620","count":1},{"id":"GO:0031204","count":1}]},{"hash":"1494715896986320633","title":"Neuronal signaling and synaptic plasticity","description":"The primary GO terms point to neural communication and plasticity\u2014neurotransmitter secretion and regulation of long-term synaptic potentiation\u2014supporting a neuronal signaling theme. Additional terms about myelination in the peripheral nervous system and protein localization to neural-related compartments further reinforce a neural-focused cluster, while a few other terms may reflect incidental metabolic or detoxion associations. Overall, the cluster appears to group proteins linked to neural signaling and synaptic regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":1},{"id":"GO:0071574","count":1},{"id":"GO:1900271","count":1},{"id":"GO:0090151","count":1},{"id":"GO:0022011","count":1}]},{"hash":"1421598447763344618","title":"Neural development and synaptic plasticity","description":"The terms cluster around neuron growth and synaptic function: axonogenesis, excitatory postsynaptic potential, and long-term potentiation suggest roles in neural development and synaptic strength modulation. Positive regulation of GTPase activity and peptidyl-threonine phosphorylation further point to signaling cascades involved in neurite outgrowth and synapse formation. Some terms (mitotic cell cycle, abscisic acid-activated signaling) appear less connected and may reflect broad or cross-annotated functions, but the dominant theme is neural development and synaptic signaling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060079","count":2}]},{"hash":"1461048129146550875","title":"Embryonic organogenesis","description":"The proteins show a cluster of GO terms tied to developmental processes across multiple organ systems (heart formation, neurogenesis, retina and ear development, lung vasculature, and morphogenesis), suggesting a common theme of embryonic organogenesis and differentiation rather than a single, narrow function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042668","count":3},{"id":"GO:0003144","count":3},{"id":"GO:0003407","count":3},{"id":"GO:0060426","count":3},{"id":"GO:0072050","count":3}]},{"hash":"1761843414746201690","title":"Neural differentiation and myelination","description":"The top GO terms are strongly centered on neural development, especially neuron differentiation and peripheral nervous system myelination, suggesting a neural development theme for this cluster. A few other terms (cell division, cilium assembly, metabolic signals) are present but less central, likely reflecting secondary roles or annotation noise. Hence, a label focusing on neural differentiation and myelination best represents the cluster, albeit with some uncertainty due to the mixed signals. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1902855","count":1},{"id":"GO:0022011","count":1},{"id":"GO:0007091","count":1}]},{"hash":"491890716414040915","title":"Chromatin and RNA methylation","description":"This cluster is enriched for methylation-related GO terms, including histone-related methylation (peptidyl-lysine methylation/dimethylation and regulation of histone H3-K79 methylation), rRNA methylation, N-terminal methylation, and rDNA heterochromatin formation. The common thread is epigenetic regulation via methyltransferase activities affecting both chromatin structure and RNA, suggesting a functionally cohesive group centered on methylation and chromatin/RNA modification.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018023","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0018013","count":2}]},{"hash":"993664119656027987","title":"Unknown","description":"The terms show wide-ranging roles across muscle development, circadian rhythm, kidney morphology and transport, and immune processes, with one obsolete neuronal term. There is no clear common function tying these together, so a specific label isn't supported.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":1},{"id":"GO:0007519","count":1},{"id":"GO:0042748","count":1},{"id":"GO:0072156","count":1},{"id":"GO:2000176","count":1}]},{"hash":"592982001216144649","title":"Zinc ion transport and homeostasis","description":"The top GO terms cluster around zinc handling\u2014import across membranes, intracellular zinc ion homeostasis, detoxification, and response to zinc starvation\u2014indicating proteins involved in maintaining zinc levels; a few outliers (cadmium transport, cystine transport, limb development) exist, but the prevailing theme is zinc ion transport and homeostasis.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010312","count":1},{"id":"GO:0006882","count":1},{"id":"GO:0044749","count":1},{"id":"GO:0006830","count":1},{"id":"GO:0006831","count":1}]},{"hash":"2141945781444763455","title":"Neural development and MAPK signaling","description":"This cluster is dominated by GO terms related to nervous system development, hippocampus development, and axonogenesis regulation, alongside signaling pathways such as ephrin receptor signaling and MAPK cascades (ERK/JNK) involved in neuronal signaling and phosphorylation. Despite the presence of an obsolete term and the lack of edges among members, the common theme is neural development and associated signaling pathways, suggesting a neural-development signaling cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1826280120387856734","title":"Vesicle trafficking and cytoskeletal dynamics","description":"The top GO terms point to intracellular transport and endomembrane trafficking (intracellular protein transport, late endosome to Golgi transport, pinocytosis, dense core granule maturation) and to cytoskeletal-driven remodeling (lamellipodium morphogenesis). Although a few terms are development-related, the dominant signals are vesicle trafficking and actin/cytoskeleton dynamics, suggesting this as the core function of the cluster. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0002051","count":1},{"id":"GO:1904179","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0034499","count":1}]},{"hash":"1389177351628836553","title":"Chromatin regulation and transcription","description":"The terms cluster around transcription initiation and processing (DNA-templated transcription, SAGA complex localization to regulatory regions, mRNA export) and chromatin modification (histone deubiquitination), with additional links to genome maintenance (DNA repair, trinucleotide repeat maintenance) and proteostasis. This suggests a broader theme of transcriptional control tied to chromatin state and genome stability rather than a single narrow function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002038","count":1},{"id":"GO:0072742","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0000724","count":1}]},{"hash":"333186663281891860","title":"RNA processing and translation initiation machinery","description":"This cluster centers on RNA metabolism and the initiation of protein synthesis, with GO terms pointing to translation initiation factor complex assembly, preinitiation complex formation, and small-subunit processome assembly. Additional terms on mRNA splicing regulation, spliceosome activity, and mRNA export reinforce a shared role in coordinating RNA processing with translation. Terms about translation reinitiation and viral translational reinitiation further support a theme of translational control. Overall, the proteins likely participate in RNA processing and initiation of translation rather than a single isolated function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097010","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1905663","count":1}]},{"hash":"1964209137062010167","title":"ER Stress and Protein Folding","description":"The predominant GO terms relate to response to unfolded/misfolded proteins, ER-associated quality control, and regulation of translation initiation under ER stress, pointing to a coherent theme of the unfolded protein response and protein folding in the endoplasmic reticulum.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031204","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0006986","count":1}]},{"hash":"1658894035686632469","title":"Membrane Transport and Signaling Regulation","description":"This cluster contains GO terms across membrane transport (fructose, sulfate, chloride transmembrane transport) and membrane potential regulation, coupled with signaling-related terms (positive regulation of GTPase activity, TORC1 signaling) and post-translational control (peptidyl-serine dephosphorylation), plus mRNA transport. The shared theme appears to be proteins that coordinate transport processes with cellular signaling and regulatory mechanisms, though the presence of sporulation and capacitation terms suggests some functional diversity. Overall, a coherent core around transport and signaling regulation fits best.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0030435","count":1}]},{"hash":"258397574879542359","title":"Unknown","description":"The GO terms span insect cuticle development, cGMP signaling, ion transport, cardiac action potential, immune signaling, brain maturation, and gas responses, with no clear common function or pathway linking the proteins; there are no interactions among them, so a coherent label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0071321","count":1},{"id":"GO:0034767","count":1},{"id":"GO:0010754","count":1},{"id":"GO:0086045","count":1}]},{"hash":"1426750095428501955","title":"ER stress response and protein quality control","description":"The top GO terms converge on unfolded protein response, ER-associated degradation, misfolded protein transport, and ER-targeting/translation regulation during ER stress, indicating a proteostasis/ER quality-control theme for this cluster (with one odd term like DNA replication likely incidental). ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031204","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0006986","count":1}]},{"hash":"1118703818921307421","title":"Arginine/ornithine transport and NO-mediated inflammation","description":"The top GO terms point to import of L-arginine and L-ornithine across membranes, plus arginine catabolism and polyamine transport, with related links to nitric oxide production in inflammatory responses and macrophage activation. This suggests a cluster centered on arginine/ornithine transport and metabolism, connected to NO signaling in immune cells, rather than a purely metabolic or transport subset. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097640","count":1},{"id":"GO:0098713","count":1},{"id":"GO:0006527","count":1},{"id":"GO:0010923","count":1},{"id":"GO:0097638","count":1}]},{"hash":"1685971068206879651","title":"Meiotic recombination and spermatogenesis","description":"The top GO terms cluster around meiotic processes and male germ cell development\u2014synaptonemal complex assembly, DNA strand displacement and recombination, double-strand break repair in meiotic recombination, recombinational repair, and spermatid development\u2014along with mating type switching, all pointing to meiosis-specific chromosomal events and male gamete formation. This coherent theme supports labeling the cluster as Meiotic recombination and spermatogenesis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007533","count":2},{"id":"GO:0006310","count":1},{"id":"GO:0000732","count":1},{"id":"GO:1990426","count":1},{"id":"GO:0007130","count":1}]},{"hash":"618809340792407788","title":"Muscle Development and Protein Turnover","description":"The GO terms show a cluster enriched for muscle-related processes (myoblast fusion, positive regulation of cardiac muscle cell proliferation) along with protein homeostasis (positive regulation of translation and proteasomal ubiquitin-dependent protein catabolic process). This suggests a coherent theme around muscle development and coordinated protein synthesis/degradation, even though a few development terms (labyrinthine layer, thyroid gland) are also present but less represented. Overall, the core signal supports muscle growth/differentiation with regulated proteostasis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0045727","count":2},{"id":"GO:0060711","count":1},{"id":"GO:0007520","count":1},{"id":"GO:0060045","count":1}]},{"hash":"628311724989371839","title":"DNA Damage Response","description":"These proteins appear to be linked by functions related to maintaining genome integrity: multiple top GO terms point to DNA repair (global genome nucleotide-excision repair, positive regulation of DNA repair) and cell-cycle/DNA damage checkpoint signaling, with telomere maintenance and apoptosis also appearing. This suggests a cohesive role in sensing and correcting DNA damage and coordinating cell fate decisions to preserve genome stability, even though a few terms (interferon signaling, prolactin secretion) are less directly connected and may reflect broader protein functions or annotation noise.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060340","count":3},{"id":"GO:0031571","count":3},{"id":"GO:0030466","count":3},{"id":"GO:0070911","count":3},{"id":"GO:1904153","count":3}]},{"hash":"2270989358818138340","title":"Mitochondrial stress and apoptosis signaling","description":"This cluster centers on mitochondrial involvement in cellular stress and apoptosis, as indicated by terms like protein insertion into the mitochondrial inner membrane, intrinsic and extrinsic apoptotic signaling, and ROS metabolic processes. The presence of NF-kappaB signaling and interferon-beta response terms suggests concurrent inflammatory/stress signaling, while retinoic acid response points to broader differentiation-related signaling that can intersect stress pathways. Together, these terms depict a cohesive theme of mitochondrial stress driving apoptotic and inflammatory signaling responses.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":1},{"id":"GO:0043280","count":1},{"id":"GO:0071300","count":1},{"id":"GO:0045732","count":1},{"id":"GO:2001243","count":1}]},{"hash":"2085262040824795777","title":"Translation initiation and preinitiation complex formation","description":"The top GO terms are centered on translational initiation, formation of the translation preinitiation complex, and regulation of translation initiation, with a couple of obsolete chromatin-related terms likely representing noise. This points to proteins involved in the translation initiation machinery.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043486","count":1},{"id":"GO:0016569","count":1},{"id":"GO:2000270","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0075525","count":1}]},{"hash":"337749002286120350","title":"Glycolysis and Carbohydrate Metabolism Regulation","description":"The top GO terms are dominated by carbohydrate-related processes: fructose and glucose metabolism, fructose 2,6-bisphosphate metabolic process, carbohydrate phosphorylation/dephosphorylation, and negative regulation of glycolytic process, plus terms about glucose catabolic to lactate via pyruvate. This points to a shared theme around energy metabolism and glycolysis control. A couple of terms (brain development, cobalamin biosynthetic process) are less obviously connected and may reflect multi-function annotations or broad roles, but the core cluster aligns with metabolic regulation of carbohydrate use.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006003","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0006000","count":2},{"id":"GO:1902153","count":2}]}]