[{"hash":"1575381824481995419","title":"Neuronal vesicle trafficking and dendrite development","description":"The top GO terms point to intracellular transport pathways (ER to Golgi, endosome to Golgi, endosome to late endosome, Golgi to plasma membrane) and membrane localization, plus a neuronal context with dendrite development. This suggests a cohesive cluster focused on vesicular trafficking and membrane delivery in neurons, relevant to dendritic growth and maintenance.","confidence":"High","size":29,"edges":22,"triangles":5,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":13},{"id":"GO:0034498","count":10},{"id":"GO:1903078","count":8},{"id":"GO:0045022","count":8},{"id":"GO:0016358","count":8}]},{"hash":"1564676007909079882","title":"DNA Damage Repair and Apoptosis","description":"This cluster is dominated by terms related to genome maintenance and cell fate: DNA repair, DNA recombination, DNA catabolic process, and apoptotic process. The presence of ATP generation from poly-ADP-ribose points to PARP-associated energy dynamics during damage responses, while transcription by RNA polymerase II suggests active transcriptional regulation in these contexts. A subset of development-related terms (lung alveolus development, embryonic heart tube development, oocyte maturation) may reflect broader regulatory roles of DNA damage responses in development or tissue-specific expression patterns. Overall, the core theme appears to be DNA damage response and apoptosis, with some developmental associations.","confidence":"Medium","size":29,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1990966","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0006308","count":2}]},{"hash":"1086771440887761686","title":"Membrane ion transport and signaling","description":"The cluster is dominated by GO terms related to ion movement across membranes and ion homeostasis (potassium import, intracellular potassium homeostasis, cadmium transmembrane transport) along with related membrane signaling (ionotropic glutamate receptor signaling). While there are some secondary terms tied to glycosylation and proteoglycan biosynthesis, the core theme center is membrane-associated ion transport and signaling functions.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990573","count":4},{"id":"GO:0030007","count":4},{"id":"GO:0070574","count":4},{"id":"GO:0006486","count":4},{"id":"GO:0018146","count":4}]},{"hash":"215711081596606760","title":"Negative Regulators of MAPK and Immune Signaling","description":"The top GO terms are dominated by negative regulation of signaling, including T cell receptor signaling and the ERK/MAPK cascade, plus related dephosphorylation activities, suggesting phosphatases and other inhibitors that dampen signaling across pathways. The inclusion of VEGF and insulin signaling terms supports a broader theme of signaling attenuation rather than activation. Some neural context terms (Bergmann glial differentiation, axon regeneration) indicate context-specific roles for these regulators in neural pathways, but the unifying feature remains inhibition of signaling. ","confidence":"High","size":29,"edges":209,"triangles":533,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050860","count":13},{"id":"GO:0070373","count":13},{"id":"GO:0000200","count":13},{"id":"GO:0035335","count":13},{"id":"GO:0030948","count":11}]},{"hash":"1289506910031960783","title":"Vesicle trafficking and endocytosis","description":"Based on the GO terms, the cluster is dominated by intracellular transport processes: ER-to-Golgi vesicle transport, clathrin-coated vesicle loading, and lysosome targeting, along with neurotransmitter receptor internalization, all pointing to membrane trafficking and endocytosis. Melanosome organization and GTPase activity regulation further support vesicle trafficking and organelle biogenesis. While a few terms like cell division appear, the common thread is vesicle trafficking pathways.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0051138","count":3},{"id":"GO:0032438","count":3},{"id":"GO:0099590","count":3},{"id":"GO:1900126","count":3}]},{"hash":"722671853239795723","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":66,"triangles":55,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0042273","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0000747","count":6}]},{"hash":"1888780420304498885","title":"Developmental Signaling and Metabolic Regulation","description":"These proteins cluster around developmental processes, highlighted by CNS neuron development and multicellular organism development. They also show links to metabolism and signaling, including sterol import, vitamin D3 metabolic process, glycogen catabolic regulation, diadenosine tetraphosphate biosynthesis, and positive regulation of STAT tyrosine phosphorylation, suggesting coordination between metabolic signals and developmental programs. Some mitosis-related terms are present but do not define the cluster.","confidence":"Medium","size":29,"edges":277,"triangles":1320,"max_degree":28,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":29},{"id":"GO:0070640","count":29},{"id":"GO:0042523","count":29},{"id":"GO:2000775","count":29},{"id":"GO:0035376","count":29}]},{"hash":"293005074187961023","title":"Lamellipodium assembly and actin remodeling","description":"The cluster shows a strong enrichment for GO terms related to actin cytoskeleton dynamics, including lamellipodium assembly, actin filament organization, Arp2/3-mediated actin nucleation, polymerization, and regulation of stress fibers and cell migration. These themes point to a cohesive function in remodeling the actin cytoskeleton to drive membrane protrusions and motility.","confidence":"High","size":29,"edges":397,"triangles":3429,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:1903526","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0030036","count":5},{"id":"GO:0051016","count":4},{"id":"GO:1990416","count":4}]},{"hash":"2097924390177980543","title":"Cell signaling and development","description":"The top GO terms point to multiple signaling pathways (PI3K activity, ERK cascade, ephrin, TCR) and development-related processes (nervous system, spermatid development, ossification). This suggests the proteins form a cluster centered on signal transduction with roles in developmental and immune contexts.","confidence":"Medium","size":29,"edges":79,"triangles":133,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":9},{"id":"GO:0071260","count":7},{"id":"GO:1903351","count":7},{"id":"GO:0031532","count":7},{"id":"GO:0070374","count":7}]},{"hash":"2152522941761290110","title":"EMT-like Developmental Cell Migration","description":"This cluster centers on regulation of cell proliferation, apoptosis, adhesion, and migration, with terms for negative proliferation, promoting apoptosis, calcium-dependent cell-cell adhesion, and cell migration, plus modulation of Wnt signaling and tissue development (lung mesenchyme, dopaminergic neuron differentiation). Together these point to EMT-like programs governing cell movement and tissue remodeling during development. Overall, a cohesive theme of EMT-associated developmental migration fits best. ","confidence":"High","size":29,"edges":385,"triangles":3133,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0008285","count":15},{"id":"GO:0043065","count":15},{"id":"GO:0015991","count":15},{"id":"GO:0090090","count":15},{"id":"GO:0016477","count":15}]},{"hash":"401370707664374187","title":"Unknown","description":"The top GO terms span neural development and signaling (long-term potentiation, excitatory postsynaptic potential, axonogenesis) together with cardiovascular/hematologic processes (heart development, blood coagulation, fibrinolysis) and metabolic response (cellular response to glucose). There isn't a single unifying function apparent across all terms, so I label this cluster Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001275","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0060291","count":6},{"id":"GO:0060079","count":5},{"id":"GO:0007409","count":5}]},{"hash":"612710234270746458","title":"Dendritic Spine Signaling and Synaptic Organization","description":"Dominant GO terms point to neuronal synapses and cytoskeletal regulation: dendritic spine morphogenesis, protein localization to the synapse, receptor clustering, and Rho/JNK signaling with protein dephosphorylation. This suggests a cluster of proteins involved in synaptic assembly and signaling at dendrites, with cytoskeletal remodeling as a key theme.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0008285","count":25},{"id":"GO:0046328","count":25},{"id":"GO:0035023","count":24},{"id":"GO:0035418","count":24},{"id":"GO:0043113","count":24}]},{"hash":"153638518894975699","title":"RNA processing and translational regulation","description":"This cluster centers on RNA processing (spliceosome-mediated splicing, polyadenylation, mRNA export) and regulation of translation initiation and reinitiation, including IRES-dependent viral translation, suggesting a shared role in RNA metabolism and translational control, with links to stress-related mRNA stability and regulatory ncRNA\u2013mediated gene silencing.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":10},{"id":"GO:0006378","count":8},{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0075522","count":6}]},{"hash":"408773319400075166","title":"Temperature-responsive signaling and development","description":"The top GO terms cluster around temperature- and pain-related responses and signal transduction (ERK cascade, GTPase activity), with additional development-related terms (heart development, multicellular organism development). This suggests proteins involved in temperature-triggered signaling that also participate in broader developmental processes, rather than a single specific function. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0070374","count":9},{"id":"GO:0007507","count":9}]},{"hash":"1016377633282179342","title":"Neuronal excitability and synaptic signaling","description":"This cluster shows strong enrichment for ion transport (sodium, potassium, calcium), excitatory postsynaptic potentials, and both glutamatergic and GABAergic synaptic transmission, along with locomotory and circadian behavioral terms. Together, these GO terms point to proteins involved in neural signaling and regulation of neural activity that underlies behavior.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035725","count":12},{"id":"GO:0071805","count":11},{"id":"GO:0060079","count":11},{"id":"GO:0001661","count":10},{"id":"GO:0007214","count":10}]},{"hash":"1764188424617210691","title":"ECM Remodeling and Vascular Development","description":"Top terms cluster around collagen fibril organization and embryo implantation, tying to extracellular matrix remodeling during development. Additional terms highlight mechanotransduction and signaling (ERK cascade) that regulate smooth muscle proliferation, angiogenesis, ossification, and coagulation, suggesting coordinated ECM-driven control of vascular and skeletal formation. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007566","count":7},{"id":"GO:0030199","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0048661","count":6},{"id":"GO:0016525","count":6}]},{"hash":"1043440829134451921","title":"Embryonic development and placental organogenesis","description":"The top GO terms emphasize embryonic development and tissue differentiation, including placental/trophoblast differentiation, endocrine system development, left-right patterning, EMT in heart/endocardial cushion formation, and cartilage morphogenesis. Together they point to a cohesive role in early development and organogenesis, with placenta-related processes being a central theme. An outlier like antibiotic biosynthetic process likely reflects annotation noise rather than a true cluster signal.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090309","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060707","count":4}]},{"hash":"517499249524262590","title":"Neural development and ER organelle dynamics","description":"This cluster centers on neural development processes\u2014radial glia-guided migration, nerve branching morphogenesis, and regulation of axon extension\u2014while also highlighting intracellular organelle organization and maintenance, including ER tubular networks, nuclear pore assembly, and peroxisome organization. The co-occurrence of neural morphogenesis terms with ER/peroxisome-related terms suggests a theme of coordinating neuronal growth and migration with organelle architecture and trafficking, making this a cohesive neural-development/organellar-dynamics cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051292","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0035264","count":3},{"id":"GO:0032581","count":3},{"id":"GO:0071788","count":3}]},{"hash":"560956483720158238","title":"Vascular Angiogenesis and Coagulation Regulation","description":"This cluster is dominated by terms tied to blood vessel biology and hemostasis, including angiogenesis (GO:0001525, GO:0045766), collagen fibril organization (GO:0030199), and coagulation/fibrinolysis (GO:0007596, GO:0042730). It also includes endothelial survival and apoptotic regulation (GO:2000352, GO:1902042) and platelet-related regulation (GO:0090331), with a vascular-hormonal context suggested by the renin-angiotensin term (GO:0002018). These themes collectively point to a module of proteins involved in vascular remodeling, angiogenesis, coagulation, fibrinolysis, and inflammatory responses.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000352","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0042730","count":5},{"id":"GO:1902042","count":5},{"id":"GO:0030199","count":5}]},{"hash":"806133016238060222","title":"Innate Immune Activation and Inflammation","description":"The top GO terms cluster around innate immunity and inflammatory signaling (complement activation lectin pathway, basophil activation, NK cell chemotaxis regulation, response to fungal origin, and arachidonic acid\u2013mediated processes), with a few developmental terms likely reflecting pleiotropy rather than a single program. ","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":28},{"id":"GO:0090238","count":26},{"id":"GO:0072287","count":26},{"id":"GO:0001502","count":26},{"id":"GO:0060355","count":26}]},{"hash":"74528144180836417","title":"Developmental signaling and morphogenesis","description":"Based on GO terms including negative regulation of IGF receptor signaling, regulation of PI3K/AKT signaling, BMP signaling, endodermal differentiation, palatal development, angiogenesis, and myelination, the cluster seems to collect proteins involved in developmental signaling and tissue morphogenesis rather than a single specific process.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043569","count":10},{"id":"GO:0010936","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0030513","count":9},{"id":"GO:0002043","count":8}]},{"hash":"2021716327295568324","title":"Unknown","description":"The top GO terms span very different biological areas (heart development, spindle assembly, hearing, GPCR signaling, endocytosis, iron transport, vacuolar protein catabolism, deglutamylation, ERAD-related glycoprotein processing, and folic acid metabolism), with no clear shared function or pathway linking the 29 proteins. The absence of network edges further supports a heterogeneous set rather than a cohesive module, so no single informative label can be assigned beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0006898","count":2}]},{"hash":"1971744116749079363","title":"GPCR-AC Signaling and Metabolic Regulation","description":"This cluster centers on adenylate cyclase\u2013activating GPCR signaling and related metabolic processes, including activation of adenylate cyclase, thermogenesis, temperature response, and electron transport, with connections to blood pressure regulation and membrane potential. The presence of pain perception and vascular-related terms suggests broader signaling roles, but the core theme ties GPCR signaling to energy metabolism and cardiovascular regulation.","confidence":"Medium","size":29,"edges":10,"triangles":6,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":16},{"id":"GO:0019233","count":14}]},{"hash":"302042858724719312","title":"Embryonic Development and Chromatin Regulation","description":"The cluster centers on developmental regulation (in utero embryonic development, pituitary gland development, neural precursor proliferation) and chromatin remodeling (histone deacetylation, histone H3-K4 demethylation, chromatin binding). This pattern suggests proteins involved in epigenetic control of development, with some accompanying signaling and response terms (cAMP signaling, xenobiotic response) that may reflect broader regulatory roles.","confidence":"Medium","size":29,"edges":4,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0055114","count":13},{"id":"GO:0071320","count":12},{"id":"GO:0042493","count":11},{"id":"GO:2000179","count":11},{"id":"GO:0034720","count":11}]},{"hash":"1364488385962565776","title":"Multicellular Development and Differentiation","description":"This cluster is dominated by GO terms related to embryonic and organismal development, including cranial skeleton morphogenesis and adipocyte differentiation, indicating involvement in tissue formation and cell fate decisions. Additional terms touch on mechanosensory and synaptic localization processes, with some immune and telomere-related activities appearing as secondary associations. Overall, the common theme appears to be developmental and differentiation pathways across tissues.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048701","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0010765","count":3}]},{"hash":"1779205525147342155","title":"Membrane-Associated Metabolic Regulation","description":"The GO terms cluster around membrane biology and metabolism: regulation of mitochondrial membrane potential, maintenance of electrochemical gradients, GPI anchor biosynthesis, triglyceride storage, and regulation of glucose transport\u2014pointing to membrane-related energy balance and transport processes. Some terms touch on immune signaling and tissue remodeling (T/B cell proliferation, retinal cell death, bone resorption), but the dominant pattern supports a membrane-associated metabolic regulation theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":3},{"id":"GO:0010248","count":2},{"id":"GO:0006506","count":2},{"id":"GO:0030730","count":2},{"id":"GO:0046325","count":2}]},{"hash":"1824416052853508119","title":"Dopaminergic GPCR signaling in vascular and enteric smooth muscle","description":"This cluster is strongly enriched for dopamine receptor signaling terms (GO:0010579, GO:0007191, GO:0007195) and for positive regulation of blood pressure, suggesting a cohesive theme of dopaminergic GPCRs modulating vascular and smooth muscle tone. Additional terms related to Rho signaling and enteric smooth muscle differentiation support a broader role in smooth muscle regulation, with some general metabolic terms present but less central. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0007191","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0007195","count":13},{"id":"GO:0035025","count":13}]},{"hash":"1977718512724407718","title":"Neurodevelopment and Neurotransmission","description":"The top GO terms point to brain development (thalamus, adenohypophysis) alongside neuronal signaling and neurotransmitter handling (dopamine uptake, glycine/serotonin secretion, glycinergic transmission), with supporting roles in amino acid transport and glial growth. This suggests proteins in a neural development and synaptic function cluster, rather than a single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021794","count":11},{"id":"GO:0051583","count":10},{"id":"GO:0061537","count":10},{"id":"GO:1903346","count":10},{"id":"GO:0015820","count":10}]},{"hash":"771413747636789170","title":"Neuronal signaling and synapse morphogenesis","description":"The cluster is enriched for neural signaling and synapse-related GO terms (ephrin receptor signaling, Rho-mediated cytoskeletal dynamics, dendritic spine morphogenesis, and synapse assembly), with behavioral associations such as vocalization and social behavior, suggesting a theme of neuronal connectivity and synaptic development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0043552","count":6},{"id":"GO:0010863","count":6},{"id":"GO:0050798","count":6},{"id":"GO:0048013","count":6}]},{"hash":"454922260819306518","title":"Actin Cytoskeleton Dynamics","description":"Dominant GO terms center on actin filament formation and turnover (actin network formation, formin-nucleated actin cable assembly, actin filament depolymerization), pointing to cytoskeleton remodeling as the core theme. While transcription and signaling terms appear, they are less consistently represented; thus the label emphasizes the strongest shared function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051639","count":4},{"id":"GO:0070649","count":4},{"id":"GO:0050829","count":3},{"id":"GO:0000122","count":3}]},{"hash":"820635955586276227","title":"Rho-driven signaling and vascular remodeling","description":"The top GO terms cluster around Rho protein signal transduction regulation, angiogenesis and endothelial cell processes, insulin signaling, and related cytoskeletal/epithelial dynamics (microvillus assembly). While not every term points to a single pathway, they collectively reflect signaling cascades that govern cell shape, movement, survival, and vascular/remodeling processes across tissues. This indicates a coherent theme of Rho-mediated signaling influencing vascular and epithelial remodeling, with broader metabolic signaling context.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0030033","count":6},{"id":"GO:0042730","count":6},{"id":"GO:0008286","count":6},{"id":"GO:2001275","count":5}]},{"hash":"1839597001206328932","title":"Steroid Hormone and Lipid Biosynthesis","description":"The cluster is dominated by lipid- and steroid-related GO terms: sphingolipid biosynthesis, fatty acid elongation, glucocorticoid biosynthetic process, and C21-steroid hormone metabolic process, with related developmental cues like lung and retinal metabolic processes. A single outlier (poly-hydroxybutyrate biosynthetic process) is likely noise, but the prevailing theme points to lipid and steroid metabolism with developmental contexts, making this label representative. ","confidence":"Medium","size":28,"edges":80,"triangles":100,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":15},{"id":"GO:0042619","count":14},{"id":"GO:0055114","count":14},{"id":"GO:0042574","count":13},{"id":"GO:0030148","count":13}]},{"hash":"1532113572155972008","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related GO terms: excitatory postsynaptic potential, visual perception, axonogenesis, long-term potentiation, Schwann cell development, and heart development (which can be linked via neural crest derivatives). These point to roles in neural development and synaptic transmission. The presence of mitotic cell cycle and G2/M transition terms suggests some proteins with broader cell-cycle roles or expression in progenitor cells, but the strongest signal remains neural development and synaptic function.","confidence":"High","size":28,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":21},{"id":"GO:0000278","count":21},{"id":"GO:0007601","count":19},{"id":"GO:0043065","count":18},{"id":"GO:0007507","count":18}]},{"hash":"1779953735432168747","title":"NF-\u03baB signaling regulation by ubiquitination","description":"This cluster is enriched for protein ubiquitination and deubiquitination terms (GO:0016567, GO:0044313, GO:0035523) alongside GO terms for regulation of NF-kappaB transcription factor activity and canonical NF-kappaB signaling (GO:0051092, GO:0043123), pointing to a common role in controlling NF-\u03baB pathway activity through ubiquitin-related processes. Other terms related to protein quality control and related signaling pathways are present but NF-kB-ubiquitin regulation is the dominant theme.","confidence":"High","size":28,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0051092","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0006517","count":5},{"id":"GO:1904378","count":5}]},{"hash":"695253441131004753","title":"Membrane dynamics and cell motility","description":"The cluster shows strong enrichment for membrane-related processes: phospholipid homeostasis and protein transmembrane transport, plus maintenance of cell polarity, adhesion-dependent spreading, and ameboid-type cell migration. These together point to a cohesive theme of membrane organization coordinating cytoskeletal remodeling and directed movement, with additional regulation-related terms indicating broader cellular responsiveness.","confidence":"High","size":28,"edges":257,"triangles":1137,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055091","count":23},{"id":"GO:0010628","count":23},{"id":"GO:0035900","count":17},{"id":"GO:0000060","count":17},{"id":"GO:0042832","count":17}]},{"hash":"1369263093648352784","title":"Neural excitability and signaling","description":"The top terms cluster around neuronal activity: action potentials, mechanosensory pain detection, membrane repolarization and hyperpolarization, synaptic plasticity, and even circadian regulation in the brain, with some optic nerve organization\u2014together pointing to neural signaling and excitability rather than unrelated processes. Although one term is obsolete, the dominant theme is neural communication and ion-channel\u2013related dynamics.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0019228","count":2},{"id":"GO:0009409","count":2},{"id":"GO:0050966","count":2},{"id":"GO:1900454","count":2}]},{"hash":"567691008066260849","title":"Chromatin modification and transcriptional regulation","description":"This cluster is dominated by chromatin-related functions: histone H3-K4 and H3-K27 methylation/demethylation, regulation of heterochromatin and DNA methylation-driven gene expression, plus a spermatid nucleus differentiation term. These signals point to roles in chromatin remodeling and transcriptional control, with other terms (ribosome biogenesis, spindle assembly) likely reflecting broader nuclear processes. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0097190","count":8},{"id":"GO:0051225","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0061188","count":6},{"id":"GO:0080182","count":6}]},{"hash":"220081827597353921","title":"Mitochondrial Respiratory Chain & ATP Synthesis","description":"Based on GO terms, the cluster is enriched for mitochondrial electron transport (NADH to ubiquinone), assembly of complexes I and II, proton motive force-driven ATP synthesis, and proton transmembrane transport, which together define energy production in mitochondria. Additional terms (DNA-templated transcription and ribosomal large subunit assembly) likely reflect mitochondrial gene expression machinery, and a few proteins link to CNS development contexts; overall the dominant signal is mitochondrial energy metabolism, suggesting this cluster represents a mitochondrial OXPHOS module.","confidence":"High","size":28,"edges":372,"triangles":3131,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":3},{"id":"GO:0032981","count":3},{"id":"GO:0042777","count":2},{"id":"GO:0007417","count":2},{"id":"GO:1902600","count":2}]},{"hash":"1502368091349620633","title":"Neural and glial development regulators","description":"This cluster is enriched for transcriptional regulation and lineage specification terms, notably spinal cord motor neuron and oligodendrocyte fate, astrocyte differentiation, and other organ development (bronchiole, endocrine pancreas). The common theme is developmental gene regulation allocating neural and glial lineages, plus broader tissue development, suggesting these proteins act as transcriptional regulators guiding development across multiple tissues.","confidence":"Medium","size":28,"edges":363,"triangles":2929,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":19},{"id":"GO:0060766","count":19},{"id":"GO:0006366","count":17},{"id":"GO:0043433","count":17},{"id":"GO:0031018","count":16}]},{"hash":"2072230353322097467","title":"Spliceosome Regulation and Translation Initiation","description":"The cluster is dominated by GO terms for spliceosome-mediated mRNA splicing, regulation of splicing and polyadenylation, translation initiation complex assembly, and initiation regulation, plus components involved in small-subunit processome assembly and regulatory ncRNA\u2013mediated gene silencing. Together these terms point to a cohesive RNA-processing module (splicing/processing) tightly linked to the assembly and control of translation initiation, indicating the proteins work in coordinating post-transcriptional RNA processing with translation initiation processes.","confidence":"High","size":28,"edges":7,"triangles":1,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":15},{"id":"GO:1900363","count":15},{"id":"GO:0002188","count":15},{"id":"GO:0001731","count":15},{"id":"GO:0045292","count":15}]},{"hash":"1178139523109837103","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0039651","count":6},{"id":"GO:0075713","count":6},{"id":"GO:0015074","count":6},{"id":"GO:0000398","count":4},{"id":"GO:0055114","count":3}]},{"hash":"1015785809445825789","title":"Keratinocyte differentiation and hair follicle morphogenesis","description":"This cluster is dominated by GO terms tied to skin biology: keratinocyte proliferation, keratinization, and hair follicle morphogenesis, with additional hints of epidermal development and related tissue remodeling (e.g., cell envelope organization, vascular remodeling in wound contexts). The clearest, most representative theme is keratinocyte differentiation and hair/skin morphogenesis, with secondary support from wound-related remodeling terms. High confidence.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006517","count":5},{"id":"GO:0072378","count":4},{"id":"GO:0001974","count":4},{"id":"GO:0010838","count":4},{"id":"GO:0031069","count":4}]},{"hash":"1340750036937499476","title":"Mitochondrial Function and Innate Immune Signaling","description":"The cluster combines mitochondrial energy-related processes (aerobic respiration; mitochondrial distribution) with antiviral innate immune responses (innate immune response; dsRNA response; interferon signaling; defense against virus), suggesting a module where mitochondrial function supports antiviral signaling.","confidence":"High","size":28,"edges":374,"triangles":3174,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0009060","count":3},{"id":"GO:0009938","count":3},{"id":"GO:0048312","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1576022704874564821","title":"Negative Regulators of MAPK, TCR, and Synaptic Signaling","description":"The cluster is dominated by GO terms for negative regulation of signaling pathways, including T cell receptor signaling and ERK/MAPK cascades, as well as inactivation of MAPK activity. Additional terms touch on cell cycle control, focal adhesion regulation, synaptic processes (postsynaptic density assembly, synaptic vesicle clustering), and peptidyl-tyrosine dephosphorylation, suggesting a set of proteins that broadly dampen signaling in immune, neuronal, and cellular-adhesion contexts.","confidence":"High","size":28,"edges":350,"triangles":2900,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":26},{"id":"GO:0070373","count":26},{"id":"GO:0000200","count":26},{"id":"GO:0007049","count":19},{"id":"GO:0051895","count":19}]},{"hash":"520998268037847055","title":"Neural signaling and actin cytoskeleton dynamics","description":"This cluster is dominated by GO terms linking neuronal signaling (Rho and GPCR-related pathways, JNK cascade regulation, and postsynaptic potential modulation) with cytoskeletal remodeling (actin cytoskeleton organization). The presence of terms related to grooming behavior and myelin localization further supports a neural context, suggesting the proteins collectively participate in signaling that governs neural function and cytoskeletal dynamics underpinning synaptic and cellular architecture. Some terms (endothelial barrier, LPS signaling) are less directly related but may reflect broader signaling roles; overall the theme fits neural signaling intertwined with cytoskeletal regulation.","confidence":"Medium","size":28,"edges":54,"triangles":11,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0035750","count":4},{"id":"GO:2000821","count":4},{"id":"GO:0090557","count":4}]},{"hash":"988645356266847652","title":"Circadian Transcription Regulation","description":"This cluster is dominated by GO terms for circadian regulation of gene expression and DNA-templated transcription, with strong representation of circadian rhythm control and transcription-related activities. While other terms (development, signaling, and metabolism) appear, the prevailing signals point to a cohesive theme of circadian transcription regulation across the proteins.","confidence":"High","size":28,"edges":314,"triangles":2069,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032922","count":28},{"id":"GO:0006351","count":28},{"id":"GO:0042753","count":27},{"id":"GO:0043433","count":23},{"id":"GO:0021502","count":17}]},{"hash":"2177987080329040512","title":"Nuclear Import and Chromatin Regulation","description":"The top GO terms are heavily skewed toward nuclear transport (NLS-bearing protein import, ribosomal protein import into nucleus, protein import into nucleus, nuclear pore complex assembly) and chromatin/centromere maintenance (meiotic sister chromatid cohesion, centromeric), with supporting signals in GTPase regulation and desumoylation. While some terms touch on innate immune responses, the dominant theme ties nuclear import/export and chromatin organization together, so the cluster is best described as nuclear transport coupled to chromatin regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051754","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0042176","count":4}]},{"hash":"1703697301455717898","title":"ECM remodeling and angiogenesis","description":"The top GO terms cluster around collagen biosynthesis and fibril organization, proteolysis, keratinocyte differentiation, and angiogenesis, along with regulatory signals for platelet aggregation. This points to extracellular matrix remodeling, collagen production/assembly, matrix degradation, and vascular remodeling, common to wound healing and tissue morphogenesis. Embryo implantation and stress/pain responses further reflect ECM dynamics in tissue remodeling. Overall, the dominant theme is ECM remodeling with angiogenic activity.","confidence":"High","size":28,"edges":141,"triangles":306,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0007566","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0090331","count":4},{"id":"GO:0030216","count":4}]},{"hash":"225116055201700255","title":"Neural development and axon guidance","description":"This cluster is dominated by GO terms tying to nervous system development (GO:0007399), synapse assembly (GO:0051965), and axon-related processes (GO:0007413, GO:1902287). Frequent cell adhesion terms (homophilic/heterophilic) point to roles in neurite outgrowth, synapse formation, and fasciculation, with semaphorin-plexin signaling reinforcing axon pathfinding (GO:1902287). The presence of innate immune and complement-related terms likely reflects neural-immune interactions (e.g., microglia) during development rather than a primary immune function. Overall, the cluster appears to group proteins involved in neuronal development, synapse formation, and axon guidance, with adhesion as a key supporting feature.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":14},{"id":"GO:0051965","count":13},{"id":"GO:0007156","count":13},{"id":"GO:0043931","count":13},{"id":"GO:0007157","count":12}]},{"hash":"2185983598044339518","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The top GO terms cluster around actin cytoskeleton dynamics (actin filament bundle assembly, lamellipodium assembly, cell migration) and signaling pathways that regulate Rho/Rac-mediated cytoskeleton remodeling and adhesion-dependent spreading, indicating a cohesive theme of actin-driven cell movement. Some terms about neuronal differentiation and receptor signaling appear but do not outweigh the core actin/migration motif.","confidence":"High","size":28,"edges":76,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0031666","count":5},{"id":"GO:0016477","count":5}]},{"hash":"1446802504381084138","title":"Mitotic progression and transcription regulation","description":"This cluster centers on mitotic cell cycle transitions (G1/S, G2/M, re-entry), chromosome condensation, and spindle dynamics, coupled with transcriptional regulation. The insulin signaling term suggests growth signaling feeding into proliferation, consistent with mammary epithelial cell proliferation. Overall, a cohesive theme of mitotic control with transcriptional coordination.","confidence":"High","size":28,"edges":5,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046626","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0000082","count":8},{"id":"GO:2000775","count":7},{"id":"GO:0010696","count":7}]},{"hash":"1356336090261958934","title":"Vertebrate organogenesis and tissue development","description":"This cluster centers on diverse organ and tissue development terms across multiple vertebrate organs (bone/osteoblasts, retina, inner ear, brain regions, heart outflow tract, prostate gland morphogenesis) and includes multicellular organism development and transcription by RNA polymerase II, indicating a broad developmental program governing organogenesis rather than a single pathway.","confidence":"High","size":28,"edges":185,"triangles":342,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002076","count":17},{"id":"GO:0002087","count":17},{"id":"GO:0060041","count":17},{"id":"GO:0021571","count":14},{"id":"GO:0035284","count":14}]},{"hash":"491205179011009959","title":"Neural cell-adhesion and synapse assembly","description":"The top GO terms cluster around cell\u2013cell adhesion (heterophilic and homophilic), synapse assembly, and nervous system development, including axonal fasciculation, indicating a cohesive set of proteins involved in neural connectivity and synapse formation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":19},{"id":"GO:0051965","count":17},{"id":"GO:0007399","count":14},{"id":"GO:0046718","count":14},{"id":"GO:0007156","count":14}]},{"hash":"907262670415141014","title":"Axon guidance and synapse formation","description":"The terms cluster around neural development and connectivity: axon guidance (including semaphorin-plexin signaling), axon extension, paranodal junction assembly, nerve impulse transmission, and positive regulation of synapse assembly, indicating a cohesive focus on neural wiring and synaptic formation. Some bone-related terms are present but secondary.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":9},{"id":"GO:0019226","count":9},{"id":"GO:0030913","count":8},{"id":"GO:0048675","count":8},{"id":"GO:1900220","count":8}]},{"hash":"1928575625558499642","title":"Mitotic Chromosome Segregation and Chromatin Assembly","description":"The cluster is enriched for mitosis-related terms (mitotic sister chromatid segregation; CENP-A containing chromatin assembly) and microtubule severing, indicating spindle function and chromosome segregation. Additional signals for DNA-templated transcription, mRNA splicing, and protein ubiquitination reflect broader nuclear regulation, with a peripheral link to vesicle transport. Overall, the dominant theme is mitotic chromosome organization and cell division.","confidence":"High","size":28,"edges":12,"triangles":2,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0051013","count":4},{"id":"GO:0071276","count":4}]},{"hash":"958961557486471182","title":"ECM Remodeling and Cell Adhesion","description":"The top GO terms cluster around extracellular matrix dynamics and cell\u2013surface interactions: negative regulation of extracellular matrix assembly, hyaluronan metabolic process, chondrocyte morphogenesis, integrin-mediated signaling, extravasation, and T cell activation via antigen presentation. Together these suggest a shared function in ECM remodeling and cell adhesion/migration, with immune and developmental processes linked through attachment and signaling. A few terms (e.g., chlorophyll biosynthetic process, stamen formation) appear as outliers or annotation noise, but the dominant theme supports ECM and adhesion roles.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070208","count":10},{"id":"GO:0045123","count":9},{"id":"GO:1901202","count":9},{"id":"GO:0048455","count":9},{"id":"GO:0030212","count":9}]},{"hash":"2253121111346242538","title":"Vascular inflammation and angiogenesis","description":"This cluster is dominated by immune and vascular remodeling signals: complement activation (classical and lectin pathways), blood coagulation, positive regulation of endothelial barrier establishment, and angiogenesis, all pointing to inflammatory vascular processes and remodeling. While a few terms are unrelated (e.g., transcriptional regulation), the core theme centers on immune-coagulation activity and vascular growth/remodeling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0001867","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0044130","count":5}]},{"hash":"187971888416565285","title":"Muscle fiber development and calcium signaling","description":"The dominant terms point to skeletal muscle fiber development, fiber-type switching (fast/slow), and calcium-dependent signaling (regulation of postsynaptic calcium, calcineurin-NFAT pathway), suggesting a core theme of muscle differentiation and calcium-mediated transcriptional responses. Some terms (B cell signaling, EMT, mitotic checkpoints) appear less central, likely reflecting broad or intersecting pathways present in the protein set.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0043552","count":3},{"id":"GO:1900477","count":3},{"id":"GO:0051533","count":2}]},{"hash":"212092457715176503","title":"Vertebrate Developmental Transcription Regulators","description":"This cluster is dominated by GO terms tied to transcription by RNA polymerase II (e.g., transcription by RNA pol II, DNA-templated transcription, and negative regulation of transcription by RNA pol II) and a suite of vertebrate developmental processes (retina development, roof of mouth development, primitive streak formation, embryonic viscerocranium morphogenesis, osteoblast development, and ureteric bud branching). The combination suggests proteins that act as transcriptional regulators orchestrating vertebrate embryogenesis and organogenesis, rather than a single pathway. ","confidence":"High","size":28,"edges":372,"triangles":3126,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0006351","count":12},{"id":"GO:0060041","count":11},{"id":"GO:0060021","count":10},{"id":"GO:0000122","count":10}]},{"hash":"1060815214476735252","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around development and morphogenesis, including multicellular organism development, left-right pattern formation, cartilage morphogenesis, and endocrine system development, with EMT in heart cushion formation and trophoblast differentiation supporting embryonic organogenesis and tissue differentiation. A few calcium signaling terms are present but secondary to the main developmental theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3}]},{"hash":"559339666315022624","title":"Mitotic cell cycle and division proteins","description":"The top GO terms are dominated by mitosis- and cell-cycle processes (mitotic cell cycle, cell division, mitotic sister chromatid segregation, microtubule-based movement, regulation of meiotic nuclear division, and related transcription activity). A few terms about nervous system development and lens fiber differentiation appear but are outweighed by mitotic machinery terms, suggesting these proteins cluster around cell-cycle progression and mitosis functions.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0007018","count":3}]},{"hash":"1524010622414161654","title":"Cardiac development and signaling","description":"These proteins show a clear emphasis on heart formation and associated signaling: right atrium morphogenesis, Notch signaling in second heart field cardioblast proliferation, and venous endothelial differentiation. Additional terms point to GPCR-PKC signaling and mechanoresponse in cardiac/vascular contexts, with related roles in kinase regulation and chromatin/DNA repair processes that can accompany proliferative heart tissue. Overall, the cluster centers on cardiac development and its regulatory signaling pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007205","count":17},{"id":"GO:0060843","count":16},{"id":"GO:0071260","count":16},{"id":"GO:0033280","count":16},{"id":"GO:0003213","count":16}]},{"hash":"2210228253937503189","title":"Unknown","description":"The top GO terms show a mix of plant-specific processes (strigolactone biosynthesis, secondary shoot formation) and animal/microbial processes (integrin signaling, endocannabinoid signaling, oxidant detoxification, lipid and vitamin biosynthesis). This diversity suggests no single coherent function or pathway tying the cluster together, so a meaningful, specific label cannot be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":10},{"id":"GO:0042619","count":7},{"id":"GO:1901601","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0098869","count":7}]},{"hash":"1743164131734370515","title":"Unknown","description":"The cluster's top GO terms span nitrite and cadmium transport, dendritic cell antigen presentation, limb development, CAAX-box protein processing, and regulation of mitochondrial translation, with a few obsolete biosynthesis terms. This mix indicates no single shared function or pathway binding most of the proteins; the absence of edges (0) and triangles reinforces the lack of a cohesive module. Likely the proteins are functionally diverse or the annotations reflect noise.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0002606","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0071586","count":2}]},{"hash":"540024450999904582","title":"Craniofacial development and vascular remodeling","description":"This cluster centers on developmental processes, especially craniofacial structures (roof of the mouth, biomineral tissue development) and Wnt signaling, with midbrain development as a broader neurodevelopment signal. It also includes terms related to vascular/ECM remodeling such as endothelial barrier establishment, coagulation, elastin catabolic process, and fibrinolysis, suggesting roles in tissue formation with matrix and vessel remodeling, rather than a single metabolic function. The broad regulatory term for transcription by RNA polymerase II reflects general developmental gene control.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0030901","count":8},{"id":"GO:0016055","count":7},{"id":"GO:0060021","count":7},{"id":"GO:1903142","count":6}]},{"hash":"935610665122603162","title":"Neural development and axon guidance","description":"The top GO terms point to neural development and axon guidance, highlighted by semaphorin-plexin signaling in axon guidance and related terms for sympathetic neuron projection guidance/extension and paranodal junction assembly. Bone-related terms (ossification and skeletal system development) suggest an accompanying developmental program, while a few immune/obsolete terms may reflect annotation noise. Overall, the dominant theme is neural development with axon guidance, with some broader developmental signals. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":13},{"id":"GO:0043931","count":13},{"id":"GO:0006958","count":12},{"id":"GO:1902287","count":12},{"id":"GO:0030913","count":12}]},{"hash":"1264611224009597880","title":"Unknown","description":"The GO terms span immune signaling, bone and Sertoli cell proliferation, nicotine and electrical stimulus responses, hypoxia, DNA damage\u2013induced apoptosis, and tissue-level homeostasis, with no clear unifying function across the cluster; thus a concise, representative label cannot be defined.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":3},{"id":"GO:0030282","count":3},{"id":"GO:0035094","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0051602","count":3}]},{"hash":"1575789700882177731","title":"Ubiquitin-Dependent Regulation with Muscle and Kidney Development","description":"The prominent ubiquitination-related terms (ubiquitin-dependent protein catabolic process; K33-linked ubiquitination; negative regulation of protein ubiquitination) suggest a core role in protein turnover and ubiquitin signaling. The accompanying terms point to skeletal muscle and renal development and function (skeletal muscle tissue and fiber development; distal tubule morphogenesis; renal sodium ion absorption), with vitamin D response and SA node regulation adding broader signaling context. Together, these terms imply a cluster of proteins involved in ubiquitin-mediated regulation linked to muscle and kidney developmental pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0033280","count":7},{"id":"GO:0098907","count":7},{"id":"GO:1990390","count":7},{"id":"GO:0031397","count":7}]},{"hash":"872283300577611051","title":"Negative regulation of signaling and vesicle processes","description":"The top GO terms cluster around inhibitory roles, including negative regulation of Ras and Rho signaling, angiogenesis, neutrophil degranulation and cellular extravasation, and blood vessel remodeling. In addition, vesicle-related activities such as acrosome reaction and synaptic vesicle priming, plus membrane repair and deubiquitination, suggest a overall function of dampening signaling and vesicle/membrane dynamics across diverse cell types. This supports a cohesive theme of negative regulation across signaling and vesicle-associated processes rather than a single pathway.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0002692","count":3}]},{"hash":"1037499716055690285","title":"Rho GTPase\u2013driven cytoskeletal remodeling in immune signaling","description":"This cluster is enriched for GO terms related to Rho/small GTPase signaling and actin dynamics (e.g., lamellipodium assembly, regulation of Rho protein signal transduction) and includes immune-related pathways (B cell receptor signaling, B cell proliferation, integrin signaling, neutrophil chemotaxis). The common thread appears to be cytoskeletal remodeling and vesicle trafficking coordinated with immune signaling, characteristic of immune cell migration and endocytosis. Keratan sulfate proteoglycan biosynthesis is less central but may reflect extracellular interactions; overall, the core theme is actin dynamics driven by Rho family GTPases in immune contexts.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0048488","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0030890","count":3},{"id":"GO:0043552","count":3}]},{"hash":"872872192838149785","title":"Embryonic organogenesis and tissue differentiation","description":"This cluster shows a strong enrichment for developmental and morphogenesis processes spanning pancreas, heart, placenta, palate, cartilage, and endocrine system formation, suggesting proteins coordinated for embryonic organ development and tissue differentiation rather than a single pathway. Some entries reflect general cellular processes, but the dominant signal is embryonic organogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0060707","count":8},{"id":"GO:0060806","count":8}]},{"hash":"1488310463505571988","title":"Developmental Differentiation and Signaling","description":"The top GO terms point to broad developmental processes (in utero embryonic development, hair follicle morphogenesis, spermatid differentiation, mitotic cell cycle) and signaling/cell adhesion (Rho signaling, cell adhesion), with additional stress/response terms (hydrogen peroxide, xenobiotic response) and tissue-specific processes (hepatocyte apoptosis, B cell proliferation). This suggests a cluster centered on general development and cell signaling rather than a single specific pathway, hence a Developmental Differentiation and Signaling label is appropriate.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0097284","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1236849563257506686","title":"Unknown","description":"The top GO terms cover a wide range of distinct processes\u2014cilia/microtubule dynamics, metal ion stress response, innate immunity, protein oligomerization, meiotic regulation, ER stress\u2013induced apoptosis, lipid signaling, pigmentation, DNA damage checkpoints, and cytoskeletal severing\u2014without a unifying biological theme. This diversity suggests there isn\u2019t a coherent, single function defining the cluster, so a generic Unknown label is most appropriate.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0060271","count":11},{"id":"GO:0071276","count":10},{"id":"GO:0050830","count":10},{"id":"GO:0051260","count":10},{"id":"GO:0040020","count":9}]},{"hash":"889538809078491660","title":"Retroviral entry, integration, and latency","description":"The top GO terms point to steps of a retroviral lifecycle: entry into the host, reverse transcription (RNA-templated DNA synthesis), DNA integration into the host genome, DNA recombination, and establishment of proviral latency, along with host-pathogen interactions like modulation of host apoptosis and RNAi pathways. A coherent theme is viral replication and genome integration rather than normal host differentiation.","confidence":"High","size":27,"edges":89,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0039651","count":9},{"id":"GO:0046718","count":9},{"id":"GO:0075713","count":9},{"id":"GO:0015074","count":9}]},{"hash":"592320933317871795","title":"Steroid Hormone Biosynthesis and Metabolism","description":"The top GO terms are dominated by steroid-related processes: androgen metabolic process, testosterone biosynthetic process, aldosterone biosynthetic process, and brassinosteroid homeostasis, plus related development such as female gonad development. This suggests a coherent theme around steroid hormone production and regulation, with some additional detox/metabolism terms that may reflect broader metabolic capabilities or cross-talk. Confidence: Medium","confidence":"","size":27,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":13},{"id":"GO:0008209","count":12},{"id":"GO:0071280","count":12},{"id":"GO:0061370","count":12},{"id":"GO:0010268","count":11}]},{"hash":"212742892774292969","title":"Gram-positive cell wall biosynthesis","description":"The top GO terms are strongly dominated by teichoic acid biosynthesis and related cell wall processes (e.g., teichoic acid biosynthetic process, undecaprenyl phosphate\u2013mediated biosynthesis, cell wall organization), with additional signals for cellulose biosynthesis and overall DNA replication as core cellular activities. This pattern points to genes involved in Gram-positive bacterial cell wall assembly and maintenance, despite some auxiliary terms that may reflect broader housekeeping annotations. ","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0019350","count":5},{"id":"GO:0071549","count":3},{"id":"GO:0075015","count":3},{"id":"GO:0007299","count":3}]},{"hash":"889439573929816264","title":"Epithelial morphogenesis and cell adhesion","description":"The top GO terms point to processes shaping and organizing cells and tissues\u2014lamellipodium assembly, Rho signaling, and adhesion with maintenance of epithelial polarity\u2014alongside broader developmental morphogenesis (insect follicle epithelium, midbrain, heart). This pattern suggests a cohesive theme of epithelial morphogenesis and cell adhesion during development, with remodeling indicated by apoptotic processes. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0030032","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0007299","count":5}]},{"hash":"1564096966046566137","title":"Dopaminergic Synaptic Signaling and Cocaine Response","description":"This cluster is dominated by GO terms tied to brain signaling and drug-related behaviors: dopaminergic synaptic transmission, visual processing/learning, ERK/MAPK signaling, and cocaine-induced behavioral responses, with protein phosphorylation as a common regulatory mechanism. While a few terms (e.g., heart development, prostaglandin response) are peripheral, the core theme centers on neural signaling and drug-related plasticity.","confidence":"High","size":27,"edges":329,"triangles":2445,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0070374","count":22},{"id":"GO:0071380","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0007507","count":22}]},{"hash":"321581922583757012","title":"Transcriptional Regulation and Chromatin Modification","description":"Top GO terms point to DNA-templated transcription and its regulation, coupled with histone methylation marks (H3K4/H3K79) and protein oligomerization. While some terms are labeled obsolete, the recurring themes are transcriptional control and chromatin state, with additional signals affecting GTPase activity (Rac) and NF-kappaB signaling. Together these suggest a module of transcriptional regulation coordinated by chromatin modifiers and signaling inputs.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0035021","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0051568","count":4}]},{"hash":"934317441927574540","title":"RNA processing and antiviral response","description":"The cluster shows strong enrichment for RNA metabolism and processing (translation, tRNA processing, primary miRNA processing) along with antiviral-related terms (response to virus, regulation of viral transcription, negative regulation of viral genome replication). While metabolic terms like the TCA cycle appear, the dominant theme centers on RNA processing and antiviral signaling.","confidence":"High","size":27,"edges":197,"triangles":803,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0045071","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0090502","count":4}]},{"hash":"1025665820592293169","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0002188","count":5}]},{"hash":"1077664022517177566","title":"Unknown","description":"Top terms are diverse across transcription regulation, retinol metabolism, antibiotic biosynthesis/response, sporulation, LPS biosynthesis, beta-glucan cell wall biosynthesis, growth hormone receptor signaling, and cell-matrix adhesion, implying mixed functions across organisms. There is no single cohesive theme to assign a precise, representative label.","confidence":"","size":27,"edges":11,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0006355","count":7},{"id":"GO:0042572","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0030435","count":5}]},{"hash":"1941556332598863306","title":"UV-Response and Nucleotide-Excision Repair","description":"The terms cluster around UV light response (UV-B/UV-C) and nucleotide-excision repair (including transcription-coupled NER and pyrimidine dimer repair), coupled with cell-cycle regulation. This pattern points to a set of proteins involved in sensing and repairing UV-induced DNA damage, with a secondary signal of broader regulatory processes, justifying a UV response and DNA repair label.","confidence":"Medium","size":27,"edges":17,"triangles":6,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0010224","count":4},{"id":"GO:0048597","count":4},{"id":"GO:1901666","count":4},{"id":"GO:0071157","count":4}]},{"hash":"519510296021107399","title":"Telomere maintenance regulation","description":"The top GO terms converge on telomere maintenance and capping, including positive regulation via telomerase and telomere capping, along with negative regulation of telomere maintenance. Although there are also signaling-related terms (Wnt, ephrin, GPCR) and calcium transport, the strongest unifying theme is regulation of telomere integrity, suggesting these proteins collectively influence telomere maintenance with some signaling cross-talk.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0032212","count":3}]},{"hash":"685415874381168894","title":"Chromosome maintenance and cell cycle regulation","description":"This cluster is dominated by GO terms related to DNA replication, DNA repair, mitotic and meiotic spindle organization, DNA-templated transcription, and chromatin-related chromosome condensation (histone H3 S10 phosphorylation). Together these indicate a cohesive role in genome maintenance and progression through the cell cycle, with chromatin modification as a key regulator. Some metabolic terms appear as minor associations but do not redefine the core theme. ","confidence":"High","size":27,"edges":127,"triangles":215,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":26},{"id":"GO:0006281","count":25},{"id":"GO:0000278","count":25},{"id":"GO:0051893","count":25},{"id":"GO:0006351","count":25}]},{"hash":"866081630294581187","title":"Neural synapse formation and auditory function","description":"This cluster shows many terms tied to synapse assembly and neural connectivity (axonal fasciculation, corpus callosum development, ephrin signaling) together with sensory functions including perception of sound and equilibrioception, pointing to a role in neural development and auditory/balance sensing.","confidence":"High","size":27,"edges":40,"triangles":22,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0022038","count":3},{"id":"GO:0051965","count":3}]},{"hash":"1262476124682913102","title":"Wnt and Hippo Signaling in Development","description":"The top GO terms reflect developmental signaling (Wnt, Hippo) combined with organogenesis-related processes (heart and nervous system development, angiogenesis) and differentiation (keratinocyte differentiation). This suggests a cluster of proteins involved in growth control and multi-tissue development rather than a single tissue-specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030216","count":21},{"id":"GO:0090263","count":21},{"id":"GO:0006915","count":21},{"id":"GO:0060044","count":21},{"id":"GO:0035329","count":21}]},{"hash":"189276985306744032","title":"Unknown","description":"The listed GO terms cover immune defense (Gram-positive bacterial response, IL-2 production), apoptosis, transcription regulation, translation, protein homooligomerization, energy metabolism (mitochondrial ATP synthesis), and RNA modification (tRNA pseudouridine synthesis). This spread suggests there isn\u2019t a single cohesive function uniting all proteins, making a concise, specific label impractical.","confidence":"","size":27,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0035234","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0042775","count":3},{"id":"GO:0006412","count":3}]},{"hash":"422491402104977423","title":"ERAD\u2013Proteasome\u2013Autophagy Protein Quality Control","description":"This cluster centers on ubiquitin-dependent ERAD, proteasome assembly, autophagosome maturation, and related trafficking, indicating a coordinated protein quality control network that handles misfolded proteins via degradation and autophagy, with associated transport and structural dynamics.","confidence":"High","size":27,"edges":343,"triangles":2733,"max_degree":26,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:0070842","count":5},{"id":"GO:0016558","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0006888","count":4}]},{"hash":"1722480499490109333","title":"Neural development and synaptic signaling","description":"This cluster is dominated by terms tied to neural differentiation and function\u2014axonogenesis, visual perception, and excitatory postsynaptic potentials\u2014along with multicellular development and transcriptional regulation, which together point to neuronal development and synaptic activity. Some outliers (angiogenesis, mitotic cell cycle, plant ABA signaling) reflect broader developmental contexts or annotation noise, but do not override the neural theme.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0007409","count":9},{"id":"GO:0006349","count":9},{"id":"GO:0007601","count":8}]},{"hash":"1864113047358135367","title":"Notch signaling and epidermal differentiation","description":"This cluster centers on signaling pathways governing epidermal development and differentiation, highlighted by Notch receptor processing and keratinocyte differentiation, along with integrin and VEGF signaling that mediate cell adhesion and tissue remodeling. TNF response and related terms suggest an inflammatory context often accompanying epidermal dynamics.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0032331","count":10},{"id":"GO:0007220","count":9},{"id":"GO:0034612","count":9},{"id":"GO:0030216","count":9}]},{"hash":"1954112738422628153","title":"Neural development and axon guidance signaling","description":"Based on the top GO terms, this cluster is enriched for neuronal connectivity processes: positive regulation of synapse assembly, semaphorin-plexin signaling for axon guidance, and nervous system development. Additional terms point to intracellular signaling pathways (Rho and ERK/MAPK) and cell surface receptor signaling that control neurite outgrowth and synapse formation, with some cocaine-response annotation reflecting neuronal signaling context. Together these terms suggest a coherent theme of neural development and synaptic connectivity.","confidence":"High","size":27,"edges":26,"triangles":0,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0035023","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0042220","count":3}]},{"hash":"552090727667076868","title":"Cardiovascular-Renal GPCR Signaling","description":"This cluster is dominated by GO terms for blood pressure regulation, positive regulation of renal sodium excretion, and activation of adenylate cyclase via GPCR signaling, plus related signaling and metabolic processes (electron transport chain, coagulation). While a few terms (retina development, pain) are less directly tied, the core theme centers on GPCR-mediated signaling affecting cardiovascular and renal function. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":21},{"id":"GO:0022900","count":20},{"id":"GO:0010579","count":20},{"id":"GO:0007190","count":20},{"id":"GO:0035815","count":18}]},{"hash":"1004461924625284419","title":"Immune Regulation and Cell Adhesion","description":"The cluster is enriched for defense response to bacterium and terms describing regulation of immune cell activity (macrophage, NK, T cell) and cell\u2013cell adhesion (homophilic/heterophilic). These suggest proteins involved in immune signaling and contact-dependent interactions between cells, a coherent theme across many GO terms. A few terms related to GABA signaling and behavior are less connected and may reflect annotations not directly tied to the core cluster function.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":14},{"id":"GO:0000187","count":12},{"id":"GO:0001661","count":9},{"id":"GO:0007214","count":9},{"id":"GO:0007626","count":9}]},{"hash":"2125402013119935575","title":"Neuronal signaling and ion channel activity","description":"These proteins appear to form a module centered on neural communication and sensory processing, supported by GABA signaling, excitatory postsynaptic potentials, membrane depolarization, and sodium/potassium ion transport. The presence of locomotion, conditioned taste aversion, and sound-sensing terms reinforces a neuronal-excitability theme, likely involving ion channels and receptors; a distant immune-related term may reflect pleiotropy rather than a core function of the cluster.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":9},{"id":"GO:0007214","count":9},{"id":"GO:0007626","count":9},{"id":"GO:0050910","count":8},{"id":"GO:0042742","count":7}]},{"hash":"2295066114172807276","title":"Embryonic Development and Neurogenesis","description":"Top GO terms indicate diverse developmental processes across tissues (bone, retina, inner ear, peripheral nervous system, forebrain neurons, gastrulation, ureteric bud formation) together with transcriptional regulation by RNA polymerase II. This suggests a cohesive theme of embryonic development and neural differentiation, underpinned by transcriptional control.","confidence":"High","size":27,"edges":231,"triangles":969,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002076","count":14},{"id":"GO:0002087","count":14},{"id":"GO:0060041","count":14},{"id":"GO:0000122","count":13},{"id":"GO:0006366","count":11}]},{"hash":"1763543280515621010","title":"Innate immune defense and complement activation","description":"The top GO terms are strongly centered on immune responses: innate immunity, complement activation (classical pathway), defense against Gram-negative and Gram-positive bacteria, response to lipopolysaccharide, and humoral immunity. There is also interferon-alpha response and innate immune response, indicating a coordinated immune defense module. A few terms related to neural development (axon guidance/fasciculation) and bone mineralization appear as less representative features; however, the overall signal supports an immune-defense cluster.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035455","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0030282","count":3},{"id":"GO:0002455","count":3},{"id":"GO:0048846","count":3}]},{"hash":"77749175499842564","title":"Neuronal Synaptic Signaling and Plasticity","description":"The GO terms center on neural communication and plasticity (EPSP, LTP regulation, memory, visual perception), suggesting a brain-focused synaptic function cluster. Some terms about nuclear import, mitochondrial membrane insertion, GTPase regulation, and thyroid metabolism may support neuronal activity and energy needs, but the dominant theme is synaptic signaling and memory-related processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0090281","count":2}]},{"hash":"2234690802104165633","title":"Unknown","description":"The top GO terms span apoptosis execution, ubiquitin-dependent degradation, and various signaling and development processes (Rho/Rab regulation, left-right patterning, pancreatic cell development) as well as sensory perception and protein tetramerization. There is no clear, cohesive biological theme tying these terms together, suggesting a heterogeneous cluster rather than a single functional module.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":5},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1397339685648767918","title":"Embryonic organ morphogenesis across tissues","description":"The top GO terms cluster around development and morphogenesis of multiple organs and neural structures\u2014eye/retina, cranial nerves, limb patterning, skeleton, ear, lung, and pancreas\u2014suggesting a shared theme of embryonic organ/tissue formation rather than a single tissue-specific function.","confidence":"High","size":27,"edges":10,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":25},{"id":"GO:2000836","count":24},{"id":"GO:0021642","count":24},{"id":"GO:0060441","count":24},{"id":"GO:0021889","count":24}]},{"hash":"77372473464902782","title":"Neural Development and Glutamatergic Synaptic Transmission","description":"The top GO terms point to neural differentiation and synaptic function (neuron projection development, glutamatergic synaptic transmission, excitatory postsynaptic potential, visual learning) along with receptor clustering and transcriptional regulation, indicating a theme of neural development and the organization and activity of excitatory synapses. Some broad developmental and stress-response terms are present, but the core signal centers on neuron development and glutamatergic signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0031175","count":4},{"id":"GO:0008542","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0097011","count":4}]},{"hash":"1138061790331882492","title":"Steroid and xenobiotic metabolism","description":"The top terms cluster around metabolism of steroids and hormone-like molecules (brassinosteroid homeostasis, aldosterone and calcitriol biosynthesis, vitamin D catabolic processes) as well as detoxification/catabolism of diverse organic compounds (carbazole, dioxin, alkaloids, insecticides). This suggests a shared role in processing lipophilic compounds and hormones, i.e., steroid/hormone metabolism and xenobiotic detoxification.","confidence":"Medium","size":27,"edges":50,"triangles":27,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0010268","count":27},{"id":"GO:0019341","count":27},{"id":"GO:0010164","count":27},{"id":"GO:0017143","count":27},{"id":"GO:0008585","count":27}]},{"hash":"561416206087196860","title":"Embryonic development and immune regulation","description":"This cluster combines strong signals for embryonic and organ morphogenesis (pancreatic cell development, left-right patterning, placental and trophoblast differentiation, cartilage morphogenesis, EMT in heart development, endocrine system development) with immune-related terms (adaptive immune response and regulation of RIG-I signaling), suggesting a set of proteins that participate in developmental processes while modulating immune signaling. The overlap is notable but not limited to a single pathway, justifying a label that spans development and immune regulation. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0002250","count":12},{"id":"GO:0039536","count":11},{"id":"GO:0003323","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0060806","count":10}]},{"hash":"397214349759277713","title":"Ubiquitin-dependent protein degradation","description":"The dominant GO terms relate to ubiquitination and ubiquitin-dependent proteolysis (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, ERAD), indicating rapid turnover of proteins. Some terms extend to degradation of receptors (Wnt receptor catabolic process) and growth-related pathways, consistent with proteostasis-driven regulation of signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":21},{"id":"GO:0051865","count":14},{"id":"GO:0030433","count":14},{"id":"GO:0016567","count":13},{"id":"GO:0033280","count":13}]},{"hash":"2194113802465888986","title":"Unknown","description":"The top GO terms span immune signaling, metabolic response, skeletal development, neural signaling, and vesicle trafficking, with no single shared function tying all proteins together; therefore there is no coherent theme to name, so Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0035455","count":3},{"id":"GO:0030282","count":3},{"id":"GO:0060349","count":3}]},{"hash":"312701434273032313","title":"Neural Development and Social Behavior","description":"The cluster is enriched for neural development processes such as synapse assembly, dendritic spine morphogenesis, and axon guidance, along with behavioral terms like vocalization and social behavior, pointing to a set of proteins involved in neural connectivity and behavior. Heart development and broad multicellular development terms are present but the dominant theme centers on neural development and associated behaviors.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0006915","count":3}]},{"hash":"327514262062565379","title":"Embryonic heart and placenta morphogenesis","description":"The top GO terms are dominated by embryonic development and organ morphogenesis, notably EMT in endocardial cushion formation, cartilage morphogenesis, left/right patterning, trophoblast/placental differentiation, and endocrine system development. This points to a shared theme of embryogenesis affecting heart and placental development, with some general cellular processes accompanying these functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":26},{"id":"GO:0060536","count":26},{"id":"GO:0003323","count":26},{"id":"GO:0060972","count":26},{"id":"GO:0060707","count":26}]},{"hash":"1344542872349693958","title":"Neuronal development and ERK signaling","description":"The top GO terms converge on nervous system development (including substantia nigra development) and signaling pathways, notably positive regulation of the ERK1/2 cascade and ROBO signaling, with related processes in dendritic spine development and membrane localization. This suggests a cohesive theme of neuronal differentiation, connectivity, and synaptic regulation mediated by ERK signaling, despite a few broad terms like mitotic cell cycle that are less specific to neurons. Overall, the cluster appears to reflect neuronal development and signaling functions.","confidence":"Medium","size":26,"edges":216,"triangles":781,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":17},{"id":"GO:0007399","count":17},{"id":"GO:0043552","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0021762","count":16}]},{"hash":"2296479271231876423","title":"Neuronal development and synaptic signaling","description":"Based on enriched GO terms like brain development, nervous system development, neurotransmitter secretion, regulation of synaptic vesicle exocytosis, and long-term synaptic potentiation, the cluster points strongly to neuronal development and synaptic communication. Additional terms about signaling pathways (phosphatidylinositol-mediated signaling) support a broader signaling role in neurons; a few outliers (e.g., T cell receptor signaling) may reflect shared signaling components rather than core function, but the neural theme is dominant.","confidence":"High","size":26,"edges":145,"triangles":233,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":8},{"id":"GO:0031384","count":7},{"id":"GO:0010796","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0007399","count":6}]},{"hash":"1092148318086034072","title":"Neural development signaling via ERK","description":"This cluster is dominated by GO terms related to brain and nervous system development (brain development, nervous system development, substantia nigra development) and positive regulation of the ERK1/ERK2 cascade, plus phosphatidylinositol-mediated signaling. These points together suggest proteins that coordinate neural development through ERK signaling and associated cytoskeletal dynamics, with some broader developmental terms present but secondary. ","confidence":"High","size":26,"edges":271,"triangles":1542,"max_degree":25,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0070374","count":10},{"id":"GO:0031532","count":9},{"id":"GO:0048015","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0007275","count":8}]},{"hash":"828589278386430234","title":"RNA processing and splicing regulation","description":"The cluster is driven by RNA-processing and splicing-related terms: siRNA processing, miRNA processing, RNA splicing, and regulation of alternative mRNA splicing via the spliceosome. While there are a few metabolism and DNA replication terms among the top hits, the dominant theme appears to be RNA maturation and splicing control, making this the best cohesive label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0019252","count":2},{"id":"GO:0005985","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0032211","count":2}]},{"hash":"1965052257633832523","title":"Neurodevelopment with axon guidance and synapse organization","description":"The top GO terms strongly point to nervous system development, neurogenesis, corpus callosum development, synapse organization, and axon-guidance signaling pathways (ROBO and SHH). While other terms touch on skeletal morphogenesis and muscle-related processes, the predominant theme is neural development and connectivity, including signaling pathways that guide neural growth and synapse formation.","confidence":"High","size":26,"edges":9,"triangles":2,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048701","count":11},{"id":"GO:0035385","count":10},{"id":"GO:0001822","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0007224","count":10}]},{"hash":"896457380516211150","title":"Steroid and lipid biosynthesis in development","description":"This cluster is dominated by GO terms for lipid and steroid biosynthetic processes (sphingolipid biosynthesis, fatty acid elongation, glucocorticoid and C21-steroid hormone metabolism) along with developmental signals (lung development, retinal metabolic process) and transcriptional regulation, suggesting a cohesive module linking lipid/steroid metabolism to developmental regulation. Some terms like obsolete oxidation-reduction and antibiotic response appear less related and may reflect annotation noise.","confidence":"Medium","size":26,"edges":208,"triangles":762,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":24},{"id":"GO:0042574","count":22},{"id":"GO:0030148","count":22},{"id":"GO:0006355","count":22},{"id":"GO:0042619","count":22}]},{"hash":"1143370689049682276","title":"Amino acid biosynthesis and central metabolism","description":"This cluster is enriched for biosynthetic processes (lysine and leucine biosynthesis; biotin and cobalamin biosynthesis) and core metabolic activity (TCA cycle), suggesting a group of proteins involved in primary metabolism and amino acid production. While there are a few terms related to transcription regulation and protein oligomerization, the dominant signals point to metabolic biosynthesis and energy metabolism. Confidence: Medium","confidence":"","size":26,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0051289","count":2},{"id":"GO:0032259","count":2},{"id":"GO:0006099","count":2}]},{"hash":"2207819692690731276","title":"Antiviral Innate Immune Response and Inflammation","description":"The cluster is dominated by GO terms tied to innate antiviral defenses and inflammatory signaling: innate immune response, defense response to virus, response to exogenous dsRNA, viral genome replication, defense/inflammatory cytokine production (TNF, IL-6), and inflammatory response. This strongly suggests a cohesive set of proteins involved in sensing viral components and mounting antiviral inflammation. Some terms like DNA replication or exploration behavior are less directly related but may reflect broader cellular or neural regulation linked to infection responses. Overall, the core theme is antiviral innate immunity and inflammation.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0035640","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0019079","count":6},{"id":"GO:0051607","count":6}]},{"hash":"1550215158456635504","title":"Mitochondrial gene expression and energy metabolism","description":"The GO terms cluster around mitochondrial functions: gene expression (DNA-templated transcription, translation, ribosomal large subunit assembly) together with energy metabolism pathways (mitochondrial electron transport chain, TCA cycle, acetyl-CoA/succinyl-CoA metabolism) and redox-related maturation (iron-sulfur cluster transfer). This suggests a cohesive module linking mitochondrial protein synthesis to respiration and metabolic flux.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006351","count":3},{"id":"GO:0006123","count":3},{"id":"GO:0006099","count":2},{"id":"GO:0097428","count":2}]},{"hash":"195736711861778174","title":"Dendrite and Spine Development with Ephrin Signaling","description":"Cluster entries are strongly enriched for neuronal development processes, especially dendrite and dendritic spine development, and ephrin receptor signaling. Additional terms on cell polarity, adhesion-dependent spreading, and cytoskeletal/migration regulation align with neuronal morphogenesis and synaptic remodeling, while ubiquitination-related terms may reflect protein turnover tied to these processes. Overall, the cluster appears to represent neuronal differentiation and ephrin-mediated signaling related to dendritic architecture and synapse formation.","confidence":"High","size":26,"edges":129,"triangles":291,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":21},{"id":"GO:0016358","count":20},{"id":"GO:0048013","count":20},{"id":"GO:0042176","count":18},{"id":"GO:0030011","count":18}]},{"hash":"411547921269961557","title":"Male reproductive and neural development","description":"The top terms cluster around developmental processes, especially male sex differentiation, prostate gland development, and striatum (brain) development, with a related signal from steroid hormone receptor assembly. While there are a few general or unrelated terms (cell division, snoRNP assembly, hydrogen peroxide response), the strongest cohesive theme is development in male reproductive and neural tissues, supporting the label. ","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0006463","count":10},{"id":"GO:0046661","count":10},{"id":"GO:0030850","count":10},{"id":"GO:0021756","count":9}]},{"hash":"164101389356396802","title":"Fatty acid and siderophore/quinone biosynthesis","description":"The cluster shows strong representation of fatty acid biosynthetic and lipid metabolism terms (very long-chain and medium-chain fatty-acyl-CoA metabolic processes), together with nonribosomal peptide biosynthesis, menaquinone biosynthesis, and siderophore biosynthesis. This pattern suggests a cohesive biosynthetic module for lipid-derived metabolites and related natural products (quinones and siderophores), rather than isolated primary metabolic activities.","confidence":"High","size":26,"edges":296,"triangles":2114,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":18},{"id":"GO:1902987","count":18},{"id":"GO:0019290","count":17},{"id":"GO:0043041","count":17},{"id":"GO:0009234","count":17}]},{"hash":"1906674606007951723","title":"Neural development and signaling with cell cycle control","description":"The cluster includes cerebellar cortex formation and Bergmann glial differentiation (neural development), plus axon regeneration and various signaling pathways (insulin signaling, T cell receptor signaling). It also features cell-cycle\u2013related processes (CDK activity and kinetochore localization), indicating a broad mix rather than a single cohesive function. This makes a neural-development\u2013centered label with signaling and cell-cycle components the best, albeit weak, fit.","confidence":"Low","size":26,"edges":302,"triangles":2094,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":14},{"id":"GO:0045736","count":14},{"id":"GO:0008285","count":12},{"id":"GO:2001275","count":12},{"id":"GO:0008286","count":12}]},{"hash":"997744531346625583","title":"DNA replication and repair cluster","description":"This cluster is dominated by GO terms related to genome maintenance: DNA replication, primer synthesis, DNA unwinding, transcription-coupled nucleotide-excision repair, and SOS response, indicating proteins that work together in replication and DNA damage repair. The embryonic cranial skeleton morphogenesis term appears as an outlier or multifunctional annotation, not changing the core theme. Overall, the group centers on genome maintenance rather than development.","confidence":"Medium","size":26,"edges":288,"triangles":1956,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":26},{"id":"GO:0048701","count":24},{"id":"GO:0006268","count":24},{"id":"GO:0009432","count":24},{"id":"GO:0006269","count":24}]},{"hash":"27641002716962097","title":"Ubiquitin-Proteasome\u2013Circadian Regulation","description":"The top GO terms indicate strong enrichment for ubiquitin-dependent protein catabolic processes, protein polyubiquitination, and SCF-dependent proteasomal degradation, pointing to a core role in proteostasis via the ubiquitin-proteasome system. The notable term regulating circadian rhythm suggests clock-related control through targeted protein turnover. Additional terms on spindle assembly and microtubule polymerization imply connections to cell-cycle regulation, potentially mediated by ubiquitin-mediated degradation. Collectively, these proteins appear to function in regulated proteolysis that influences circadian and cell-cycle processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0042752","count":14},{"id":"GO:0000209","count":11},{"id":"GO:0007057","count":9},{"id":"GO:0008285","count":9}]},{"hash":"1714079574376207608","title":"Signaling and Growth Regulation","description":"These proteins appear to be involved in regulatory signaling and growth-related processes. The top GO terms point to multiple signaling pathways (GPCR signaling, ephrin receptor signaling) and regulation of synaptic plasticity, alongside features like positive regulation of GTPase activity, cell migration, and mitotic cell cycle. While some terms reflect general cellular processes (mRNA decay, telomere maintenance), their regulation can influence gene expression and proliferation in development. Overall, the cluster seems to represent regulatory signaling and growth-related functions rather than a single pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:1901187","count":7},{"id":"GO:1900383","count":7},{"id":"GO:0000288","count":6},{"id":"GO:0032212","count":6}]},{"hash":"1346324087560961334","title":"Gonadal and neural development","description":"The top terms include both gonadal development (female gonad development, paramesonephric duct development) and nervous system development (axonogenesis, midbrain dopaminergic neuron differentiation, ventral spinal cord interneuron specification), indicating a cohesive theme of developmental signaling in gonads and neurons. Some terms (actin depolymerization, certain signaling pathways) are less central but don\u2019t negate the primary pattern.","confidence":"Medium","size":26,"edges":34,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":19},{"id":"GO:0019383","count":10},{"id":"GO:0048936","count":10},{"id":"GO:0030042","count":10},{"id":"GO:0060396","count":10}]},{"hash":"1036804850604120314","title":"Neural Sensory Perception and Dopaminergic Signaling","description":"The GO terms cluster around neural and sensory processes: perception (pain, vision, visual learning), dopaminergic synaptic transmission, cocaine-related behavioral response, and signaling pathways like ERK cascade and protein phosphorylation. Although a couple terms (e.g., heart development) are less central, the dominant pattern clearly points to neuronal signaling and sensory processing.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0007601","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0071380","count":9},{"id":"GO:0007507","count":9}]},{"hash":"1236639024912329234","title":"Nuclear import and pore complex assembly","description":"This cluster centers on GO terms for NLS-bearing protein import into the nucleus, ribosomal protein import, and nuclear pore complex assembly, suggesting a shared role in nucleocytoplasmic transport and NPC biogenesis. Some terms related to GTPase regulation or protein degradation appear ancillary but do not dominate the cluster's theme.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0006610","count":10},{"id":"GO:0051292","count":10},{"id":"GO:0006607","count":10},{"id":"GO:0000060","count":10}]},{"hash":"1385829730532775641","title":"Detoxification and Oxidative Stress Response","description":"The cluster is dominated by toxin catabolic processes, glutathione metabolism, and cellular oxidant detoxification, with supporting signals of xenobiotic metabolism and stress responses (e.g., response to starvation and potential DNA repair). This points to a cohesive module centered on detoxification and redox balance, with accompanying stress adaptation mechanisms.","confidence":"Medium","size":26,"edges":308,"triangles":2328,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0009407","count":24},{"id":"GO:0098869","count":24},{"id":"GO:0042594","count":24},{"id":"GO:0006749","count":24},{"id":"GO:0060316","count":23}]},{"hash":"867686084665667319","title":"Neural development and synapse assembly","description":"This cluster is enriched for neural-development related terms (multicellular organism development, chemorepulsion of interneurons, paranodal junctions, receptor clustering, synapse assembly, and synaptic organization), indicating proteins involved in neuron development, migration, and connectivity, with some immune-related terms likely reflecting broader GO annotations rather than core function.","confidence":"High","size":26,"edges":8,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007157","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0002377","count":5}]},{"hash":"1090711388291021409","title":"Neural development and axon guidance","description":"The top GO terms cluster around nervous system development, including synapse assembly, myelination, axonal fasciculation, and semaphorin-plexin signaling in axon guidance, suggesting a coordinated neural wiring program. Immune terms and skeletal-related terms are present but appear less central, so the dominant theme is neural development with axon guidance and myelination. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0042552","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0014068","count":8}]},{"hash":"358004142024948449","title":"Neural Ion Transport and Synaptic Signaling","description":"The most represented GO terms describe ion transmembrane transport (K+ and Na+), neuronal signaling (excitatory postsynaptic potential, GABA signaling, synaptic transmission), and sensory/neural behavior (sound perception, locomotion, conditioned taste aversion). These collectively point to neuronal communication and ion channel activity as the cluster\u2019s core function. A couple terms about osteoclast proliferation and viral release are peripheral and do not define the main theme.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071805","count":18},{"id":"GO:0007626","count":17},{"id":"GO:0060079","count":17},{"id":"GO:0035725","count":17},{"id":"GO:0001661","count":16}]},{"hash":"2149513286806190993","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0036265","count":6},{"id":"GO:0000447","count":6},{"id":"GO:0016575","count":6},{"id":"GO:0001731","count":6}]},{"hash":"1501839588756055495","title":"Neural cell adhesion and synapse assembly","description":"The cluster is dominated by GO terms related to cell-cell adhesion (heterophilic and homophilic), positive regulation of synapse assembly, nervous system development, and axonal fasciculation, which together point to roles in neural connectivity and synapse formation. While there are additional immune and bone-related terms present, the neural adhesion/synapse group is the strongest signal, suggesting these proteins mainly contribute to neural development and synaptic organization.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0051965","count":12},{"id":"GO:0007156","count":12},{"id":"GO:0007399","count":11},{"id":"GO:0043931","count":11}]},{"hash":"1495288679950423272","title":"Neural Perception and Signaling","description":"This cluster is dominated by GO terms related to sensory perception (vision and pain), visual learning, and dopaminergic synaptic transmission, along with signaling cascades (ERK/mitogen-activated pathways) and brain-specific regulatory processes (cocaine response, brain RAS). These together suggest a core theme of neural sensory processing and neural signaling, with some peripheral terms (e.g., heart development) likely reflecting broader developmental or signaling roles. ","confidence":"High","size":26,"edges":300,"triangles":2070,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0071380","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0007507","count":15}]},{"hash":"918790487328071934","title":"Ribosome biogenesis and translation initiation","description":"The cluster is dominated by GO terms related to ribosome assembly and the initiation of protein synthesis, including maturation of SSU rRNA, regulation of translational initiation, cytoplasmic translation, and formation of the translation preinitiation complex. A few unrelated or obsolete terms appear but do not define the main theme. This suggests the proteins collectively participate in ribosome biogenesis and the start of translation.","confidence":"High","size":26,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0006446","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0001711","count":1}]},{"hash":"754563380294505418","title":"Neural development and cell polarity/junction signaling","description":"The terms cluster around neural tissue morphogenesis (planar polarity, cochlea development) and tight junction assembly, along with dendrite growth and glutamate secretion, with Rho signaling and centrosome localization as supporting context. This suggests a cohesive role in neural development linked to cell polarity, junction formation, and neural signaling.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090179","count":7},{"id":"GO:0090103","count":7},{"id":"GO:0070830","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0016358","count":6}]},{"hash":"1996180919662822653","title":"Immune and calcium-cGMP signaling","description":"The top GO terms cluster around immune-related signaling (T cell receptor signaling, GM-CSF\u2013stimulus response) and intracellular signaling mediators (calcium release from sarcoplasmic reticulum, cGMP pathways, dopamine metabolism). This suggests a coherent theme of cell signaling, particularly in immune contexts with modulation by calcium and cyclic nucleotide signaling, though xenobiotic response adds broader stress signaling. Overall, the proteins seem to participate in diverse signaling networks rather than a single tightly defined pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":7},{"id":"GO:0097011","count":6},{"id":"GO:0050852","count":5},{"id":"GO:0055119","count":5},{"id":"GO:0010880","count":4}]},{"hash":"1700939107868117860","title":"RNA Pol II Transcription Regulation in Development","description":"This cluster is dominated by GO terms related to negative regulation of transcription by RNA polymerase II and related transcriptional processes, with several development-oriented terms (multicellular organism development, astrocyte differentiation, skin barrier establishment) and a few immune/viral terms, suggesting a core theme of transcriptional control during development with ancillary immune-associated functions.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006351","count":4},{"id":"GO:0050832","count":3},{"id":"GO:2001015","count":3},{"id":"GO:0007275","count":3}]},{"hash":"815845568268550145","title":"Mitochondrial Translation and Respiratory Complex Assembly","description":"The cluster centers on mitochondrial processes: mitochondrial RNA processing, mitochondrial large ribosomal subunit assembly, and assembly of the respiratory chain complex II, all pointing to mitochondrial gene expression and energy production. The presence of translation-related terms further supports a role in mitochondrial protein synthesis, tying into cellular respiration. Some xenobiotic/ethanol response signals may reflect mitochondrial stress responses, but the core theme remains mitochondrial translation and respiration.","confidence":"High","size":26,"edges":244,"triangles":1127,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0035999","count":2},{"id":"GO:0032259","count":2},{"id":"GO:0045471","count":2}]},{"hash":"61924903700809558","title":"Unknown","description":"The top GO terms cover translation initiation and preinitiation complex formation, post-translational modification (deneddylation), DNA repair, angiogenesis, germ-line cyst encapsulation, cardiac muscle apoptosis regulation, and metal ion response. This broad mix lacks a single cohesive biological function or pathway that ties all 26 proteins together, suggesting either diverse roles or annotation noise. ","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0014067","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0006446","count":3},{"id":"GO:0000338","count":3},{"id":"GO:0075522","count":3}]},{"hash":"2238691669874553781","title":"Immune Cell Mechanotransduction and Cytoskeletal Signaling","description":"The cluster shows strong signals for mechanotransduction (cellular response to mechanical stimulus) together with cytoskeletal remodeling and adhesion-related processes (small GTPases, actin reorganization, podosome assembly, cell spreading) and MAPK pathways (ERK/JNK). The presence of an immune-response term (T-helper 1) suggests these signaling and structural dynamics occur within immune cells, consistent with leukocyte adhesion, migration, and activation. Taken together, the set points to a cohesive theme of mechanosensitive immune cell signaling and cytoskeletal control.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0042088","count":5},{"id":"GO:0046330","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0051092","count":4}]},{"hash":"1821442257503679605","title":"Vertebrate Developmental Transcriptional Regulation","description":"The top GO term is transcription by RNA polymerase II, implying a core transcriptional regulation module. The presence of tissue developmental terms (osteoblast development, retina development) plus vascular/immune and stress-response terms (response to xenobiotic stimulus, IL-4 response) suggests a broad set of proteins involved in developmental programs linked to transcriptional control and cellular stress signaling. The label captures both the transcriptional activity and the developmental context, though the cluster also includes diverse stress-related functions, so the connection is present but not confined to a single pathway.","confidence":"Medium","size":26,"edges":301,"triangles":2092,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0002076","count":7},{"id":"GO:0002087","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0042493","count":6}]},{"hash":"437452461357658496","title":"GTPase-regulated vesicle trafficking","description":"The cluster centers on small GTPase signaling and vesicle transport processes, including small GTPase-mediated signal transduction, positive regulation of GTPase activity, synaptic vesicle budding, and late endosome to lysosome transport, which together point to a cohesive theme of GTPase-driven vesicle trafficking. Some terms describe tissue-specific or developmental contexts (spleen development, hepatocyte apoptotic process, dendritic spine development), but the core functional signal is vesicle trafficking regulated by GTPases. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048536","count":3},{"id":"GO:0055108","count":3},{"id":"GO:0097284","count":3},{"id":"GO:1990386","count":3},{"id":"GO:0060999","count":3}]},{"hash":"1202588503875076402","title":"Embryonic differentiation and organogenesis","description":"The cluster centers on DNA-templated transcription and multiple differentiation processes across diverse tissues (trophoblast, cerebellar granule cells, pancreas, cartilage) and developmental patterning, implying a broad regulatory program for embryonic differentiation and organogenesis. The presence of actin assembly and intracellular signaling terms suggests the cellular remodeling and signaling control that accompany morphogenesis, supporting a cohesive developmental theme rather than a single tissue-specific function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0060707","count":6},{"id":"GO:0051017","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0070198","count":4}]},{"hash":"2020729655495109259","title":"Cardiac GPCR signaling and heart development","description":"The cluster is dominated by terms related to heart development and cardiac muscle function (heart development, cardiac muscle contraction, regulation of heart contraction), together with several GPCR signaling terms (GPCR signaling, desensitization of GPCR signaling, acetylcholine receptor signaling, tachykinin receptor signaling). While axon guidance and immune-response terms appear, the strongest signal centers on GPCR-mediated control of cardiac physiology, justifying a label focused on cardiac GPCR signaling and heart development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0048846","count":7},{"id":"GO:0071222","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0007217","count":6}]},{"hash":"407304712501721558","title":"Ubiquitin-mediated proteolysis and circadian regulation","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent protein catabolic processes, various forms of ubiquitination (polyubiquitination, K63-linked, K33-linked), and ERAD-related pathways, including negative regulation of ubiquitination. Additional terms point to circadian rhythm regulation and circadian sleep/wake cycles, with supporting hints from NF-kappaB signaling modulation. This combination suggests a cohesive group of ubiquitin-proteasome system components that are also linked to circadian control, making this a circadian-regulated ubiquitin-proteolysis cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051260","count":11},{"id":"GO:0000209","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0042752","count":8}]},{"hash":"436092784755422616","title":"Embryonic Development and Tissue Morphogenesis","description":"The GO terms cluster around broad developmental processes across multiple tissues\u2014left-right patterning, cartilage morphogenesis, EMT in heart formation, pancreatic and endocrine system development, and melanocyte migration\u2014indicating a theme of embryogenesis and organ/tissue morphogenesis. Innate immune response appears but does not dominate the theme, which is why the label centers on development and morphogenesis rather than immunity. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1311260694227161180","title":"Rho\u2013Actin Cytoskeletal Mechanotransduction","description":"The cluster is dominated by GO terms on regulation of Rho signaling, actin cytoskeleton organization/remodeling, and cellular responses to mechanical stimuli, pointing to mechanotransduction via Rho and actin dynamics. Insulin/IGF signaling terms and glucose-related terms are present but secondary to the primary cytoskeletal theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0035994","count":4},{"id":"GO:0071260","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0048009","count":4}]},{"hash":"739518003081751476","title":"RNA Processing and Transcription Cluster","description":"This cluster is characterized by GO terms related to mRNA processing, DNA-templated transcription, and RNA splicing, indicating involvement in RNA metabolism and transcriptional control. Additional terms such as negative regulation of SNARE complex assembly, actin filament bundle assembly, establishment of epithelial cell polarity, heat response, and pain perception appear less central, suggesting they may reflect multifunctional roles or context-specific functions of these proteins.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0008380","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0051260","count":2}]},{"hash":"565091804378361472","title":"Rho/Rac GTPase\u2013Mediated Lamellipodium Dynamics","description":"The top terms are dominated by lamellipodium assembly and regulation of Rac and Rho GTPase signaling, plus activation of GTPase activity, pointing to actin cytoskeleton remodeling and cell migration as the cluster\u2019s core theme. While other terms (midbrain morphogenesis, insulin signaling, cardiac contraction, B cell maturation) suggest broader signaling roles, the common thread across the majority of terms centers on Rho/Rac-driven cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":21},{"id":"GO:0035020","count":20},{"id":"GO:1904693","count":20},{"id":"GO:0035023","count":20},{"id":"GO:2001275","count":20}]},{"hash":"1529028218132168089","title":"Membrane Transporters and Related Signaling","description":"This cluster is dominated by transport-related GO terms (pantothenate, glucose, myo-inositol, biotin transport, and sodium export), suggesting a core role in membrane transport. Additional membrane-associated signaling terms (Rab signal transduction regulation and MyD88-dependent TLR4 signaling) reflect regulatory interactions at the membrane. While there are some divergent terms (transcription regulation, muscle development), the transport and signaling themes are the strongest unifying thread, supporting the label. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032483","count":2},{"id":"GO:0015887","count":1},{"id":"GO:1904659","count":1},{"id":"GO:0015798","count":1},{"id":"GO:0015878","count":1}]},{"hash":"1390041225899666103","title":"Neuronal synaptic signaling and axon guidance","description":"The cluster shows strong representation of neurotransmitter secretion, presynaptic vesicle exocytosis, and synaptic vesicle maturation, along with ROBO (Roundabout) signaling and Rho pathway regulation, all pointing to neuronal synaptic function and axon guidance. Some angiogenesis/myoblast differentiation terms may reflect ROBO\u2019s broader roles, but the prominent theme is neuronal synaptic signaling and guidance.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0007269","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0007520","count":7},{"id":"GO:0099525","count":7}]},{"hash":"2285440663128140796","title":"Epithelial Morphogenesis and Hair Follicle Development","description":"This cluster shows strong signals for epithelial remodeling and organ morphogenesis, including epithelial cell-cell adhesion, apical junction assembly, and hair follicle morphogenesis/proliferation, with regulation of ERK/MAPK signaling and GTPase activity. Lung morphogenesis and other development signals support a broader morphogenetic theme, but the core appears to be epithelial/hair follicle development. Nervous system development is present but less central. ","confidence":"High","size":25,"edges":41,"triangles":14,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051291","count":6},{"id":"GO:0090136","count":6}]},{"hash":"120337621135776280","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":296,"triangles":2211,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":15},{"id":"GO:0031047","count":15},{"id":"GO:1901407","count":11},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9}]},{"hash":"2032787267334145303","title":"Amino acid catabolism and vitamin biosynthesis","description":"Dominant terms point to amino acid catabolism (L-alanine, L-aspartate, L-kynurenine) and biosynthesis of vitamins (biotin, cobalamin), plus sphinganine biosynthesis; Notch signaling appears as a minor, less central term, so a metabolic-label is most representative.","confidence":"Medium","size":25,"edges":19,"triangles":20,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":8},{"id":"GO:0007219","count":7},{"id":"GO:0006571","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0097053","count":6}]},{"hash":"1537619004192681939","title":"Stress- and immune-responsive transcription regulators","description":"Many top GO terms highlight transcriptional regulation (DNA-templated transcription; negative regulation of transcription factor activity) coupled with stress and immune responses (cellular response to lipopolysaccharide; response to immobilization stress; NF-kappaB signaling; retinoic acid signaling). Some terms also touch on differentiation (fat cell differentiation) or development (placenta development), which may reflect broader regulatory roles or noise. Taken together, the cluster seems centered on regulators of gene expression in stress/immune contexts, justifying the label.","confidence":"Medium","size":25,"edges":10,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0035902","count":9},{"id":"GO:2001275","count":8},{"id":"GO:0071222","count":8},{"id":"GO:0001893","count":8}]},{"hash":"1215442029963599352","title":"ER stress-driven antigen presentation and innate signaling","description":"The cluster centers on ER-related processes (unfolded protein response, protein folding) and MHC class I peptide assembly, coupled with innate immune signaling (non-canonical NF-\u03baB) and immune activation, suggesting a theme of ER stress linking to antigen processing and immune responses. A few terms like sperm\u2013zona pellucida binding and adhesion are less central but do not outweigh the core pattern.","confidence":"High","size":25,"edges":72,"triangles":79,"max_degree":24,"top_function":"protein folding","top_go_terms":[{"id":"GO:1900026","count":5},{"id":"GO:0006457","count":4},{"id":"GO:0010204","count":4},{"id":"GO:1901224","count":4},{"id":"GO:0007339","count":4}]},{"hash":"1937353542748635137","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":93,"triangles":142,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":18},{"id":"GO:0034975","count":17},{"id":"GO:0070389","count":13},{"id":"GO:0006260","count":12},{"id":"GO:0090084","count":11}]},{"hash":"2149343207622616298","title":"Integrin signaling and actin remodeling in immune cells","description":"This cluster's top GO terms cluster around integrin-mediated signaling, activation, and regulation of Rho and Rac pathways, which drive lamellipodium assembly and cytoskeletal remodeling. Additional terms touch on hyaluronan metabolism and insulin/IGF signaling, and immune-related processes like B cell maturation and hemopoiesis, suggesting a broader context of immune cell adhesion, migration, and development, with a core theme of cytoskeletal dynamics governed by integrin signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:0007229","count":13},{"id":"GO:0002344","count":12},{"id":"GO:2001275","count":12},{"id":"GO:0033622","count":12}]},{"hash":"777400863248860103","title":"Development and Metabolic Signaling","description":"This cluster shows a mix of developmental processes (multicellular organism development, CNS neuron development, apoptotic cell clearance) and metabolic pathways (sterol import, vitamin D3 metabolism, glycogen catabolism, diadenosine tetraphosphate biosynthesis), with hints of signaling regulation (STAT pathway). Together they suggest coordination between development and metabolism rather than a single narrow function.","confidence":"Medium","size":25,"edges":267,"triangles":1710,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":25},{"id":"GO:0070640","count":25},{"id":"GO:0042523","count":25},{"id":"GO:2000775","count":25},{"id":"GO:0035376","count":25}]},{"hash":"333513698668484985","title":"Muscle development and calcium signaling","description":"Many terms cluster around muscle biology: negative regulation of myotube differentiation, regulation of atrial cardiac muscle cell action potential, and release of Ca2+ from the sarcoplasmic reticulum, plus plasma membrane repair and muscle development. While some immune-related terms are present, the strongest shared theme is muscle development coupled with calcium-dependent signaling and membrane repair. Thus the cluster can be labeled as representing muscle development and calcium signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0014808","count":2},{"id":"GO:1903608","count":2}]},{"hash":"1539074643143135310","title":"Embryonic organogenesis and transcription regulation","description":"This cluster is enriched for transcription-related GO terms (RNA polymerase II regulation, DNA-templated transcription, chromatin remodeling) and for diverse embryonic development processes (trachea cartilage, endocrine pancreas, neural crest migration, digestive tract morphogenesis, ureteric bud branching, lung smooth muscle), suggesting a coherent program of epigenetic control guiding organ morphogenesis during embryogenesis.","confidence":"High","size":25,"edges":203,"triangles":843,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":18},{"id":"GO:0006351","count":15},{"id":"GO:0043044","count":14},{"id":"GO:0060534","count":14},{"id":"GO:0031018","count":13}]},{"hash":"1001440688320008011","title":"Immune signaling and cytoskeletal regulation","description":"This cluster centers on regulation of Rho and Ras signaling, integrin-mediated pathways, and IGF signaling, coupled with immune-related processes like B cell maturation and T cell receptor signaling regulation, as well as hematopoiesis and cell migration. The convergence of cytoskeletal dynamics, adhesion signaling, and immune receptor pathways supports a coherent role in immune cell signaling and migration, with cytoskeletal remodeling as a common thread.","confidence":"High","size":25,"edges":21,"triangles":1,"max_degree":14,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":19},{"id":"GO:0046580","count":18},{"id":"GO:0002344","count":18},{"id":"GO:0043552","count":17},{"id":"GO:2001275","count":17}]},{"hash":"1657368294381612978","title":"Rho/Rac GTPase-Mediated Actin Remodeling and Polarity","description":"This cluster centers on Rho family GTPase signaling (Rho, Rac), actin cytoskeleton dynamics (filopodium assembly, actin branching), and processes related to cell adhesion and epithelial polarity, indicating a cohesive module of cytoskeleton remodeling and polarity establishment, with some linkage to insulin signaling and GTPase activity regulation.","confidence":"High","size":25,"edges":24,"triangles":0,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":15},{"id":"GO:0035023","count":15},{"id":"GO:0046847","count":15},{"id":"GO:0008286","count":15},{"id":"GO:0007264","count":15}]},{"hash":"1960260328285467181","title":"EMT and Mesenchymal Cell Migration Signaling","description":"The top terms cluster around signaling that governs motility and adhesion (regulated GTPase activity, cell migration, calcium-dependent cell\u2013cell adhesion) and developmental control (Wnt signaling repression, mesenchymal proliferation in lung development), suggesting processes tied to epithelial-to-mesenchymal transition and mesenchymal migration. Nuclear import and apoptosis regulation also fit the broader EMT/migration program, while proton transport appears tangential. Overall, this group reflects EMT-associated signaling and adhesion driving mesenchymal development and movement.","confidence":"High","size":25,"edges":54,"triangles":26,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0008285","count":11},{"id":"GO:0043065","count":11},{"id":"GO:0015991","count":11},{"id":"GO:0006607","count":11}]},{"hash":"1358744119436018558","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034316","count":12},{"id":"GO:0030433","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0070059","count":9}]},{"hash":"2020718470202712972","title":"Sensory Perception and Neural Signaling","description":"Top GO terms cluster around sensory perception (pain, vision) and neural signaling (protein phosphorylation, membrane potential regulation), with temperature-related responses. While some terms touch on development and immune processes, the dominant pattern is sensory perception linked with signaling mechanisms.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0007601","count":7},{"id":"GO:0006468","count":7}]},{"hash":"1566236765706082496","title":"Unknown","description":"The top GO terms are highly diverse and span plant-specific processes (cellulose catabolic process, gibberellin signaling, floral organ morphogenesis) and animal development/metabolism (osteoblast development, retina development, learning, diacylglycerol catabolism) plus general stress/response terms. This scattered set provides no clear, cohesive function or pathway linking the proteins, suggesting the annotations may be noisy or represent a heterogeneous cluster rather than a single biological theme.","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0030245","count":8},{"id":"GO:0001919","count":8},{"id":"GO:0042136","count":8},{"id":"GO:0007612","count":8},{"id":"GO:0002076","count":8}]},{"hash":"1591880009246704486","title":"Angiogenesis and endothelial differentiation","description":"This cluster centers on blood vessel formation and endothelial behavior, as shown by angiogenesis and endothelial proliferation terms, along with actin remodeling and adherens junction organization that support endothelial barrier function. The hypoxia response further reinforces angiogenic signaling, while broader differentiation terms suggest developmental context; some other terms are more general cellular processes but do not override the vascular theme.","confidence":"Medium","size":25,"edges":7,"triangles":0,"max_degree":4,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0090502","count":7},{"id":"GO:0030041","count":7},{"id":"GO:0001938","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0030154","count":7}]},{"hash":"1703631948372746600","title":"Neural development and ER-stress apoptosis signaling","description":"The top GO terms show a focus on nervous system development (neural tube closure, forebrain development, multicellular organism development) along with intrinsic apoptotic signaling in response to endoplasmic reticulum stress, plus supporting transcription and cell cycle processes. The lack of edges suggests these proteins are grouped by broad developmental and stress-response roles rather than a single cohesive pathway, so the label combines neural development with ER-stress\u2013driven apoptosis as the most representative theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1184667682953651937","title":"Nervous System Development and Immune Regulation","description":"The top GO terms cluster around nervous system development and transmission of nerve impulses, supported by heterophilic cell\u2013cell adhesion that can facilitate neural wiring. There are also broader developmental signals (bone maturation, multicellular development) and notable immune-regulatory terms (negative regulation of macrophage activation, NK and T cell degranulation, and complement activation), with Rho signaling linking cytoskeletal dynamics to these processes. This combination suggests proteins involved in neural development with concurrent roles in cell adhesion and immune modulation.","confidence":"Medium","size":25,"edges":117,"triangles":157,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0006958","count":6},{"id":"GO:0019226","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0007275","count":5}]},{"hash":"1588775491828105699","title":"Transcription Regulation and Chromatin Remodeling","description":"The cluster's top GO terms converge on DNA-templated transcription, chromatin remodeling, and histone acetylation, with additional signals for rRNA maturation and ribosome biogenesis. This suggests proteins centered on nuclear gene expression control and chromatin state, possibly including nucleolar factors involved in ribosome production. The presence of obsolete terms reflects historical annotation noise but does not alter the core theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0050910","count":2},{"id":"GO:0035948","count":2}]},{"hash":"953824425175299265","title":"Immune Response and Tissue Morphogenesis","description":"The top GO terms show both immune-related activities (basophil activation, NK cell chemotaxis regulation, complement activation, fungal response) and developmental/morphogenetic processes (cartilage condensation, lymph vessel morphogenesis, distal tubule morphogenesis), suggesting a cluster of immune signaling intertwined with tissue remodeling.","confidence":"Medium","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":25},{"id":"GO:0090238","count":24},{"id":"GO:0072287","count":24},{"id":"GO:0001502","count":24},{"id":"GO:0060355","count":24}]},{"hash":"1822740374921742424","title":"Protein ubiquitination and deubiquitination","description":"This cluster is strongly characterized by GO terms for ubiquitin-related modification and removal, including multiple linkage-specific deubiquitinases (K48, K63, K6, K29, K11) and ubiquitination in general, which points to a shared role in ubiquitin signaling and protein turnover. Phosphorylation appears as a secondary signal, and a couple of peripheral terms (like antibiotic response) exist but do not define the core function. The dominant theme is ubiquitin cycling, justifying this label.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071108","count":3},{"id":"GO:0070536","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0044313","count":2},{"id":"GO:0035523","count":2}]},{"hash":"528571852219326650","title":"Steroid metabolism and reproductive development","description":"The top GO terms point to steroid-related metabolism (aldosterone biosynthesis, vitamin D catabolic, brassinosteroid homeostasis) combined with reproductive development processes (uterus, female gonad development, digestive tract development). This suggests a theme where steroid hormone metabolism links to developmental regulation, with some xenobiotic/detox associations likely representing enzyme promiscuity in detox pathways sharing metabolic machinery. ","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":15},{"id":"GO:0048565","count":14},{"id":"GO:0008585","count":14},{"id":"GO:0010268","count":13},{"id":"GO:0019341","count":13}]},{"hash":"730899619137860272","title":"Embryonic morphogenesis and transcription regulation","description":"The top GO terms center on development and morphogenesis of multiple organs (eye, brain, muscle, facial structures) along with transcriptional regulation by RNA polymerase II. This suggests a set of proteins involved in controlling gene expression during vertebrate embryogenesis and organ formation, rather than a single tissue-specific function.","confidence":"Medium","size":25,"edges":51,"triangles":9,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0060441","count":12},{"id":"GO:0000122","count":12},{"id":"GO:0048048","count":12},{"id":"GO:0043010","count":12}]},{"hash":"1371451188812316901","title":"Embryonic development and immune signaling","description":"Top terms include mesendoderm and proepicardium development, lymph node development, and immune-related regulation (GM-CSF response, monocyte differentiation, germinal center regulation), plus p38MAPK signaling. This suggests a cluster of proteins involved in developmental processes that interface with immune signaling rather than a single metabolic pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000766","count":1},{"id":"GO:1904246","count":1},{"id":"GO:0048382","count":1},{"id":"GO:0038066","count":1},{"id":"GO:0046782","count":1}]},{"hash":"1436188851322908140","title":"Neural and Hematopoietic Development","description":"The set of terms centers on neural development (midbrain development, peripheral nervous system neuron development) and hematopoietic differentiation (granulocyte and erythrocyte differentiation, blood coagulation), alongside other broad developmental processes (primitive streak formation, biomineral tissue development) and transcriptional regulation. This suggests a cluster of proteins involved in multiple lineages of organismal development with a focus on neural and blood-related pathways.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0035264","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0032496","count":5},{"id":"GO:0048935","count":4}]},{"hash":"456615451624260180","title":"Coagulation and Complement Activation","description":"This cluster is dominated by immune-related processes, with strong enrichment for blood coagulation and complement activation (classical and lectin pathways). While there are also terms related to transcription regulation and development, the coagulation/complement signals are the most represented, suggesting a primary theme around immune/coagulation pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0006958","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0048839","count":9},{"id":"GO:0030901","count":8}]},{"hash":"2165318071033493504","title":"Developmental signaling and cytoskeleton remodeling","description":"The proteins appear linked to developmental processes across tissues (lens, lung, male gonad) and to structural dynamics (actin polymerization, ECM organization, receptor clustering) as well as signaling pathways (GPCR acetylcholine signaling, TGF-beta signaling). This suggests a theme of development coordinated by cytoskeletal changes and surface signaling, hence the label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":2},{"id":"GO:0070307","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0030198","count":2},{"id":"GO:0043113","count":2}]},{"hash":"679712721304590030","title":"Developmental and vascular remodeling","description":"This cluster centers on developmental and remodeling processes across tissues: neural development (dendrite morphogenesis, cerebellar granule cell differentiation), angiogenesis and vascular signaling (angiogenesis, nitric oxide biosynthesis), and ECM-related remodeling, with additional terms touching organ development (kidney) and some metabolic/cell-cycle processes. The common theme appears to be broad developmental/tissue remodeling roles rather than a single specific function, justifying a label around development and vascular remodeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050774","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0031573","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0006196","count":3}]},{"hash":"607081837511694971","title":"Embryonic development and organ morphogenesis","description":"The top GO terms point to broad embryonic development and tissue morphogenesis across multiple lineages (endocrine system development, pancreatic cell development, left-right patterning, placental/trophoblast differentiation, cartilage morphogenesis, EMT in endocardial cushion formation), indicating a cohesive theme of organogenesis across tissues rather than a single pathway.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":25},{"id":"GO:0003323","count":25},{"id":"GO:0060972","count":25},{"id":"GO:0060707","count":25},{"id":"GO:0060806","count":25}]},{"hash":"922859181246954918","title":"Development and cell\u2013matrix adhesion","description":"Proteins in this cluster are enriched for tissue development terms (ventricular septum development, bone trabecula formation) and for cell\u2013substrate/cell\u2013matrix adhesion, including integrin-mediated adhesion. This points to a theme of development linked to extracellular matrix interactions and tissue formation, with transcriptional activity and TNF response likely reflecting broader regulatory signaling during development. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0060346","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0003281","count":3},{"id":"GO:0033627","count":3}]},{"hash":"1711500021795545279","title":"Cell Cycle and Ribosome Biogenesis","description":"The cluster centers on mitosis, cell cycle progression, and cytokinesis, with strong enrichment for ribosome biogenesis and core gene-expression processes (transcription, splicing, and translation regulation). While a couple terms like neuron projection development and cellular fusion appear less directly related, the dominant theme is cell division coupled with the protein-synthesis machinery. This label coherently captures the core functionality of the group.","confidence":"High","size":24,"edges":114,"triangles":166,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0000281","count":6},{"id":"GO:0042254","count":6}]},{"hash":"68263537452516718","title":"Bacterial cell wall glycosylation and teichoic acid biosynthesis","description":"The top GO terms cluster around glycoprotein and polysaccharide biosynthesis (protein glycosylation, teichoic acid biosynthesis, chondroitin sulfate proteoglycan biosynthetic processes) and cell wall organization, with a notable emphasis on cell envelope components and glycosylation pathways typical of bacteria. This pattern suggests a concerted function in constructing glycosylated proteins and cell wall polymers rather than purely cytosolic processes. High","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0050650","count":3},{"id":"GO:0075015","count":3}]},{"hash":"244261223514039619","title":"Neurodevelopmental Signaling","description":"Based on the top GO terms, the cluster is strongly enriched for nervous system development, neurogenesis, corpus callosum development, and ROBO signaling, with supporting roles for receptor tyrosine kinase pathways. There are additional but broader terms related to organ development and immune signaling, but the dominant theme centers on signaling mechanisms guiding neural development. Therefore, a concise label is \"Neurodevelopmental Signaling.\" ","confidence":"Medium","size":24,"edges":188,"triangles":693,"max_degree":23,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0022038","count":7},{"id":"GO:0035385","count":7},{"id":"GO:0022008","count":7}]},{"hash":"1070767522043348669","title":"Neuronal GPCR Signaling and Sensory Perception","description":"The cluster is dominated by GO terms related to sensory perception (visual and pain), visual learning, dopaminergic synaptic transmission, GPCR signaling, and ERK cascade, pointing to proteins involved in neuronal signal transduction and sensory processing, including visual pathways and dopamine-mediated synaptic communication with MAPK/ERK\u2013driven plasticity. Some terms (prostaglandin response, heart development, macrophage chemotaxis, cocaine behavioral response) may reflect broader roles or co-expression but do not override the central neural signaling theme.","confidence":"High","size":24,"edges":164,"triangles":539,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007601","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0070374","count":9},{"id":"GO:0071380","count":8},{"id":"GO:0007507","count":8}]},{"hash":"1760799432769104134","title":"Dopaminergic GPCR Signaling and Mechanosensory Response","description":"This cluster centers on GPCR-mediated signaling with dopaminergic and mechanosensory responses. The strongest terms include GPCR signaling, cellular response to dopamine, sensory perception of touch, and cellular response to mechanical stimulus, pointing to a theme of dopamine-driven neuronal signaling and mechanotransduction. Ubiquitination and regulation of signaling cascades may reflect post-translational modulation within this network, while kidney development is likely an outlier among functional annotations.","confidence":"High","size":24,"edges":58,"triangles":8,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0016567","count":10},{"id":"GO:0001822","count":10},{"id":"GO:0034260","count":9},{"id":"GO:0050975","count":9},{"id":"GO:0060161","count":9}]},{"hash":"2158947770770267965","title":"Neural and endocrine development signaling","description":"The cluster centers on development and signaling in nervous and endocrine tissues. Terms include astrocyte differentiation, myelination in the PNS, and adenohypophysis morphogenesis, plus signaling processes such as exocytosis, calcium release from intracellular stores, phosphatidylinositol signaling, and calcineurin\u2013NFAT pathways. These converge on coordinated neural/glial differentiation and neuroendocrine function, with a few outliers (e.g., spermatid development) that are less reflective of the main theme.","confidence":"Medium","size":24,"edges":27,"triangles":13,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":11},{"id":"GO:0007286","count":7},{"id":"GO:0010880","count":7},{"id":"GO:0048708","count":7},{"id":"GO:0033234","count":7}]},{"hash":"1629554053250391835","title":"Glycan biosynthesis and ECM development","description":"The top GO terms point to proteoglycan/keratan sulfate biosynthesis, glycosylation, and extracellular matrix\u2013related processes such as angiogenesis in wound healing and endochondral ossification. There are also tissue- and reproduction-related terms (Purkinje cell layer development, sperm\u2013zona pellucida binding) that fit within a broader theme of glycans and glycoproteins shaping development and tissue remodeling. While the set spans diverse biological contexts, the common thread appears to be glycan/proteoglycan synthesis and ECM-associated developmental processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0001958","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0005989","count":3},{"id":"GO:0060055","count":3}]},{"hash":"484285604772524915","title":"Membrane-associated apoptosis signaling","description":"This cluster is dominated by GO terms related to apoptosis, including apoptotic process, extrinsic apoptotic signaling pathway in absence of ligand, and B cell apoptotic process, alongside membrane-related terms like protein localization to plasma membrane and endomembrane system organization. Together these suggest proteins involved in signaling events at the membrane that regulate or execute apoptosis, potentially with an immune cell context. A few peripheral terms (meiotic cell cycle, transcription regulation) are present but do not override the core theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0072661","count":3},{"id":"GO:0032288","count":3},{"id":"GO:0010256","count":3},{"id":"GO:0001783","count":3}]},{"hash":"1339225580922287971","title":"Membrane organization and trafficking","description":"The GO terms cluster around membrane-related processes, including assembly and organization of membrane domains (membrane raft polarization, eisosome assembly), cell junction/adhesion regulation, and vesicular trafficking (transcytosis). There are additional immune and neuronal signals (B cell differentiation, BCR signaling, synaptic plasticity) that can involve membrane dynamics, but the common thread appears to be membrane structure and trafficking rather than a single specific pathway. Confidence: Medium","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0034115","count":3},{"id":"GO:0001766","count":3},{"id":"GO:0048172","count":3}]},{"hash":"580247277099459164","title":"RNA and Protein Methylation in Biosynthesis","description":"The top GO terms are dominated by methylation-related processes: tRNA, rRNA, and mRNA capping/methylation, plus protein arginine methylation, indicating a core function in methyltransferase activity. The presence of biosynthetic GO terms (cobalamin, biotin, polyamine, and antibiotic biosynthesis) suggests associated biosynthetic roles often linked to methylation steps. Together, this points to a cohesive theme around RNA and protein methylation in biosynthetic contexts.","confidence":"High","size":24,"edges":33,"triangles":10,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009236","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0030488","count":6},{"id":"GO:0036265","count":6},{"id":"GO:0009102","count":6}]},{"hash":"1155442121389222183","title":"Calcium signaling and contraction proteins","description":"The top GO terms point strongly to calcium signaling\u2014regulation of calcium channels and presynaptic calcium concentration\u2014as well as cardiac muscle contraction and calcium-release channel regulation. These motifs suggest a cohesive module of proteins involved in excitation-contraction coupling and calcium-dependent signaling, with a couple of kidney-development terms that may be incidental. Overall, the cluster seems to group proteins tied to calcium regulation and muscle/neuronal signaling pathways.","confidence":"Medium","size":24,"edges":93,"triangles":182,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035502","count":12},{"id":"GO:0072205","count":12},{"id":"GO:0060048","count":12},{"id":"GO:0038095","count":12},{"id":"GO:0060315","count":12}]},{"hash":"1662739672645564659","title":"DNA damage response and replication control","description":"The top GO terms cluster around cellular responses to DNA damage and stress, including SOS response, DNA replication/primer synthesis, various DNA repair pathways, and changes in DNA topology, suggesting a cohesive theme of genome maintenance and replication coordination. Some annotations are marked obsolete or eukaryotic-specific, but the core pattern supports DNA damage response and replication control.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009432","count":9},{"id":"GO:0000184","count":9},{"id":"GO:0006268","count":9},{"id":"GO:0033683","count":8},{"id":"GO:0006269","count":8}]},{"hash":"1463122887780537531","title":"Actin Dynamics and Rho Signaling","description":"The top GO terms cluster around actin cytoskeleton remodeling (actin filament organization, crosslink formation, cortical patch assembly) and regulation of Rho GTPase signaling, with related phosphorylation and membrane tubulation terms. This points to a shared function in cytoskeletal dynamics and signaling that underpins cell shape changes, neuronal plasticity, and development, aligning with heart development and long-term synaptic potentiation terms as manifestations of actin-driven processes.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0051764","count":9},{"id":"GO:0000147","count":9}]},{"hash":"2107906909382452162","title":"Motor neuron migration and axon guidance","description":"The cluster is strongly enriched for terms about motor neuron development: lateral motor column neuron migration, peripheral nervous system neuron axonogenesis, and motor neuron axon guidance. Supporting terms like cell-matrix adhesion, receptor clustering, and hemidesmosome assembly suggest a theme of adhesion-mediated navigation and pathfinding during neuronal development. A stray platelet aggregation term likely reflects shared adhesion mechanisms rather than a core theme. Confidence: High","confidence":"","size":24,"edges":252,"triangles":1557,"max_degree":23,"top_function":"wound healing","top_go_terms":[{"id":"GO:0097477","count":11},{"id":"GO:0070527","count":11},{"id":"GO:0043113","count":10},{"id":"GO:0031581","count":9},{"id":"GO:0034446","count":9}]},{"hash":"1064884258041076163","title":"Embryonic development and transcriptional regulation","description":"The cluster is enriched for transcription by RNA polymerase II and multiple development-related processes (floor plate development, somitogenesis, amacrine cell differentiation, lung vasculature development, vascular wound healing), suggesting a cohesive program of developmental gene regulation shaping tissue fate. Some terms reflect broader regulatory control (osteoblast differentiation, AR signaling, MHC II biosynthesis), but the dominant theme centers on embryonic development driven by transcriptional regulation.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:0035470","count":11},{"id":"GO:0045668","count":10},{"id":"GO:0060766","count":10},{"id":"GO:0035881","count":10}]},{"hash":"1407251341500029210","title":"Neuronal apoptosis and vesicle trafficking","description":"The cluster prominently features terms tied to neuronal fate and stress responses (neuron apoptotic process; intrinsic apoptotic signaling in response to ER stress; cellular response to hypoxia), alongside synaptic vesicle and trafficking processes (synaptic vesicle coating; clathrin-dependent endocytosis; intracellular protein transport) and mitochondrial membrane potential regulation, suggesting a theme around neuron-specific survival decisions and synaptic vesicle dynamics. The presence of retina development and related developmental terms supports a neural/tissue-specific context, though the core signal centers on neuronal viability and vesicle trafficking.","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060546","count":4},{"id":"GO:0070059","count":3},{"id":"GO:0051402","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0060041","count":3}]},{"hash":"2226797387958780485","title":"Nuclear Gene Expression Regulation Machinery","description":"The items are dominated by transcriptional control, chromatin modification, and RNA processing functions (negative regulation of RNAP II transcription, nucleosome assembly, histone H3-K27 methylation regulation, spliceosome-related assembly, small-subunit processome assembly), with additional components of translation initiation (EIF4F complex assembly, IRES-dependent translation). This suggests a nuclear gene expression machinery cluster coordinating transcription, RNA processing, and translation initiation, despite an outlier term related to nervous system development.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075522","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0061087","count":3}]},{"hash":"2123860242695803121","title":"Embryonic development and tissue morphogenesis","description":"This cluster is dominated by GO terms tied to developmental processes and organ/tissue formation (left/right patterning, pancreas and placenta development, trophoblast differentiation, EMT in heart development, cartilage morphogenesis, roof of the mouth, endocrine system development) with regulatory transcription (DNA-templated transcription) as a common theme. A single antiviral defense term is present but less central.","confidence":"High","size":24,"edges":46,"triangles":12,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051607","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4}]},{"hash":"2026526909652248398","title":"Mitochondrial Transport of Metabolites","description":"Predominant GO terms describe transport of various substrates across mitochondrial membranes (ADP, citrate, phosphate, ornithine, thiamine pyrophosphate, heme) and related mitochondrial processes; together with oxidative stress response and insulin signaling, this points to a theme of mitochondrial transport and metabolism.","confidence":"Medium","size":24,"edges":20,"triangles":6,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035435","count":8},{"id":"GO:0015886","count":7},{"id":"GO:0090149","count":7},{"id":"GO:0097421","count":7},{"id":"GO:0000066","count":7}]},{"hash":"426198822826757018","title":"Mitochondrial transport and dynamics","description":"The GO terms are heavily centered on mitochondrial functions: membrane fission, ATP transmembrane transport, malate-aspartate shuttle, heme transport, various ion and nucleotide transports, fatty acid response, and apoptotic mitochondrial changes, all pointing to coordinated roles in mitochondrial metabolism, transport across membranes, and stress/damage responses.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034198","count":15},{"id":"GO:0008637","count":13},{"id":"GO:0015886","count":13},{"id":"GO:0043490","count":13},{"id":"GO:0090149","count":13}]},{"hash":"918184061529639791","title":"Developmental signaling and cell-cycle regulation","description":"The cluster shows strong representation of cell-cycle regulation and proliferation control, along with multiple development-related terms spanning neural patterning (zona limitans intrathalamica, superior colliculus development), skin (hair follicle placode formation), and cardiac/conduction tissue (bundle of His-Purkinje adhesion) as well as GTPase signaling, indicating a broad developmental and growth-regulation program rather than a single pathway.","confidence":"Medium","size":24,"edges":257,"triangles":1777,"max_degree":23,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":19},{"id":"GO:0043547","count":19},{"id":"GO:0080034","count":18},{"id":"GO:0022006","count":18},{"id":"GO:0061380","count":18}]},{"hash":"255032574989304201","title":"Neural development and synapse formation","description":"These proteins cluster around neural development and synaptic organization: brain development, synapse assembly, cadherin-mediated adhesion, integrin signaling, and actin cytoskeleton regulation, with anterior/posterior patterning and signaling phosphorylation terms supporting a developmental, neural-architecture module. Some terms (adaptive immune response, sensory perception of sound) may reflect broader roles or specific contexts, but the dominant theme is brain development and synapse formation.","confidence":"High","size":24,"edges":23,"triangles":0,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0044331","count":4},{"id":"GO:0007420","count":4}]},{"hash":"422170547862924267","title":"Dopaminergic signaling and sensory processing","description":"The top GO terms cluster around neural signaling and sensory functions: dopaminergic synaptic transmission, visual perception/learning, pain perception, cocaine behavioral response, and signaling pathways (ERK cascade, GTPase regulation). This suggests a neuronal/plasticity-focused cluster centered on dopamine-mediated perception and behavior, rather than a single tissue-specific process. Some terms (heart development, macrophage chemotaxis) are peripheral, likely reflecting broader signaling roles.","confidence":"High","size":24,"edges":268,"triangles":1860,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0048148","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0007601","count":17},{"id":"GO:0008542","count":17}]},{"hash":"1190896658859369171","title":"GPCR Signaling and Sensory Perception","description":"The top GO terms converge on signal transduction and responses to external stimuli, including T cell receptor signaling, cGMP/calcium signaling, and sensory perception of smell. Several terms point to GPCR-related pathways (odorant receptors and related signaling) and regulation of calcium and cGMP signaling, along with broader responses to stimuli (TGF-beta, xenobiotic, dopamine metabolism). This suggests a cluster of proteins involved in versatile signaling processes rather than a single, narrow function, hence a GPCR-signaling and sensory-perception\u2013focused label.","confidence":"Medium","size":24,"edges":55,"triangles":52,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":13},{"id":"GO:0071321","count":11},{"id":"GO:0010754","count":11},{"id":"GO:0007608","count":11},{"id":"GO:0071560","count":11}]},{"hash":"696152927151479584","title":"GPCR-Mediated Pain and Temperature Signaling","description":"The top GO terms cluster around GPCR signaling pathways (opsin signaling, adenosine receptor signaling, adenylate cyclase-activating GPCR signaling) and sensory/thermoregulatory processes (sensory perception of pain, cellular response to temperature stimulus, diet-induced thermogenesis), suggesting a coherent role in GPCR-driven nociception and temperature-related signaling. Some other terms (endothelial barrier regulation, neutrophil chemotaxis, enteric muscle differentiation) may be downstream or context-linked, but the core theme is GPCR-mediated sensory and thermogenic signaling.","confidence":"High","size":24,"edges":189,"triangles":693,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":24},{"id":"GO:0002024","count":24},{"id":"GO:0071502","count":24},{"id":"GO:0035645","count":23},{"id":"GO:1903141","count":23}]},{"hash":"1267408786844616025","title":"Neural development and immune-regulatory cell adhesion","description":"Dominant signals are cell\u2013cell adhesion (heterophilic and homophilic) and nervous system development, including synapse assembly, which points to adhesion molecules critical for neural connectivity. The presence of AV node adhesion and other nervous-system terms reinforces a neural-context theme. At the same time, negative regulation of macrophage activation, NK and T cell cytotoxicity, and innate immune response indicate additional immune-regulatory roles for these adhesion proteins. A weaker bone ossification term suggests some cross-tissue functions, but the core theme appears to be neural development\u2013associated adhesion with immune-modulatory roles.","confidence":"Medium","size":24,"edges":194,"triangles":741,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007156","count":11},{"id":"GO:0043931","count":10},{"id":"GO:0007399","count":9},{"id":"GO:0051965","count":8}]},{"hash":"168604038584865155","title":"Embryonic morphogenesis and tissue development","description":"The cluster is dominated by GO terms describing embryonic development and organ morphogenesis across diverse tissues (eye, craniofacial structures, cartilage, nervous system, lung), with additional terms indicating transcriptional regulation during development. This suggests a coherent role in embryonic patterning and tissue formation, including regulation of RNAP II\u2013mediated transcription during development.","confidence":"High","size":24,"edges":47,"triangles":15,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0006366","count":12},{"id":"GO:0060441","count":11},{"id":"GO:0048048","count":11},{"id":"GO:0043010","count":11}]},{"hash":"311878913697577229","title":"Developmental gene regulation","description":"The top GO terms cluster around multiple organ development processes (pituitary gland, cartilage, brain, eye, lung morphogenesis, gonad) along with general transcription by RNA polymerase II and its negative regulation. This pattern suggests proteins involved in regulating developmental gene expression across tissues, not a single pathway, hence Developmental gene regulation. ","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0021983","count":14},{"id":"GO:0051216","count":13},{"id":"GO:0007338","count":13},{"id":"GO:0008584","count":13}]},{"hash":"700690507711886491","title":"Cardiac signaling and cytoskeletal remodeling","description":"This cluster centers on heart-related functions, with GO terms for cardiac muscle contraction and heart development, plus calcium-responsive signaling and phosphatidylinositol-mediated signaling. It also highlights cytoskeletal dynamics through Rho signaling, focal adhesion assembly, and actin remodeling, suggesting proteins that coordinate cardiac function via Ca2+-dependent signaling and cytoskeletal architecture. An outlier term (substantia nigra development) is present but does not override the dominant cardiac/cytoskeletal theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0071277","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0060048","count":5},{"id":"GO:0007507","count":5}]},{"hash":"19428952379950508","title":"Nociception and Thermogenesis via GPCR Signaling","description":"Based on the top GO terms, this cluster centers on pain perception and thermal responses (sensory pain, temperature stimulus, diet-induced thermogenesis) and is strongly linked to GPCR-mediated signaling that activates adenylate cyclase. While some terms (development, ossification, LPS response) are broader, the dominant pattern ties nociception and thermoregulation to GPCR-cAMP pathways.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0010579","count":11},{"id":"GO:0045777","count":11}]},{"hash":"1360462184514116011","title":"Cardiac Development and Electrical Coupling","description":"The cluster is enriched for heart-related terms (right atrium morphogenesis, Notch-regulated heart field proliferation) plus calcium signaling and electrical coupling, indicating functions in cardiac development and cardiac electrophysiology. While some terms are general cellular processes (ubiquitination, cell cycle), the dominant theme is heart morphogenesis and electrical connectivity.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0003213","count":9},{"id":"GO:0003270","count":9},{"id":"GO:0071901","count":9},{"id":"GO:0060843","count":9},{"id":"GO:0010745","count":9}]},{"hash":"804805037672964183","title":"Embryonic Development and Tissue Morphogenesis","description":"The listed GO terms cluster around embryogenesis and tissue formation\u2014left-right patterning, placental/trophoblast differentiation, cartilage morphogenesis, and EMT in endocardial cushion/heart development\u2014along with endocrine system development. These collectively suggest a developmental/morphogenetic role for the proteins. Some terms (blood coagulation, complement activation) may reflect aspects of tissue remodeling, but they do not override the dominant developmental signal.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0007596","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4}]},{"hash":"1576153737378351652","title":"Vascular development and coagulation","description":"The most represented GO terms point to blood vessel biology and coagulation (positive regulation of angiogenesis; blood coagulation; Factor XII activation; establishment of endothelial barrier; elastin catabolic process), suggesting the proteins in this cluster participate in vascular remodeling and coagulation pathways. There are also terms linked to transcription regulation and neural development, which may reflect annotation noise or pleiotropy, but the vascular/coagulation theme is the strongest, guiding the label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0045766","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0044130","count":6}]},{"hash":"1479344670491885441","title":"Endosomal-Golgi Vesicle Trafficking","description":"Top GO terms emphasize endosome transport (endosome to lysosome; early to late endosome) and Golgi-associated processes (Golgi organization; retrograde Golgi-ER transport), indicating a cohesive set of proteins involved in endomembrane trafficking between endosomes and the Golgi/ER, with ancillary cues related to cytoskeletal dynamics and epithelial morphogenesis that support vesicle movement.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0010796","count":4},{"id":"GO:0008333","count":4},{"id":"GO:0045022","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0051225","count":3}]},{"hash":"888580637396609882","title":"Neural signaling and myelin-associated cytoskeletal remodeling","description":"The terms point to nervous system\u2013related processes (social behavior, grooming behavior, peripheral nervous system myelin maintenance, myelin localization) together with cytoskeletal dynamics (filopodium assembly) and small GTPase signaling (Rac/Rho, tyrosine phosphorylation), suggesting a cohesive module governing neural signaling, myelin-associated structure, and actin-driven remodeling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035176","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0035020","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0035750","count":3}]},{"hash":"37725485036965386","title":"Innate Immune and Cytoskeletal Remodeling","description":"Top GO terms reveal innate immune response and cytoskeletal regulation (innate immune response; barbed-end actin filament capping; positive regulation of cell spreading and engulfment of apoptotic cells; mast cell proliferation; negative regulation of GTPase activity), suggesting a theme of immune signaling coordinating actin remodeling during phagocytosis and mast cell functions. Some terms (visual learning, response to cholecystokinin) are outliers; with no edges among proteins, this label is a cautious, high-level summary of the dominant immune-cytoskeletal theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0008542","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0070668","count":2},{"id":"GO:1900740","count":2}]},{"hash":"1131656079278465660","title":"Muscle sarcomere assembly and actin dynamics","description":"This cluster centers on actin cytoskeleton remodeling and muscle structure, highlighted by sarcomere organization, skeletal muscle thin filament assembly, and Arp2/3-mediated actin nucleation, with supporting links to cytokinesis and cell migration, suggesting a cohesive muscle/actin dynamics theme.","confidence":"High","size":23,"edges":126,"triangles":436,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":11},{"id":"GO:0090131","count":9},{"id":"GO:0034314","count":9},{"id":"GO:0030240","count":9},{"id":"GO:0009825","count":9}]},{"hash":"660026579718494829","title":"DNA Repair and Redox Homeostasis","description":"Top terms indicate DNA recombination and base-excision repair, pointing to genome maintenance. Additional enrichment in oxidative stress responses (hydrogen peroxide, redox homeostasis) supports a theme of DNA repair under oxidative conditions. Some terms relate to RNA processing and signaling, but the strongest signal centers on DNA repair coupled with redox regulation.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0006284","count":5},{"id":"GO:0007568","count":5},{"id":"GO:0090502","count":4},{"id":"GO:0070301","count":4}]},{"hash":"638948421306457236","title":"Developmental morphogenesis and signaling regulation","description":"This cluster centers on developmental and morphogenetic processes across multiple tissues (nervous system, hair follicles, salivary glands) with accompanying regulation of key signaling pathways (ERK/MAPK and Wnt), suggesting a shared role in coordinating tissue formation and growth.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0031532","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0007399","count":5},{"id":"GO:0060501","count":5},{"id":"GO:0031069","count":5}]},{"hash":"780845826643511200","title":"Unknown","description":"The top GO terms cover DNA recombination, RNA processing, oxidative stress responses, signaling (cAMP), lipid phosphatase activity, and even renal water transport, which are too diverse to form a single cohesive function for the cluster. There isn't a clear shared theme across most proteins, so a precise label is not derivable.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0090502","count":4},{"id":"GO:0070301","count":4},{"id":"GO:1903507","count":4},{"id":"GO:2001153","count":4}]},{"hash":"1259579429698041502","title":"Leukocyte activation and cytoskeletal remodeling","description":"This cluster centers on immune cell activation (notably T cell activation) combined with signaling and cytoskeletal dynamics: Rho and Ras pathways, lamellipodium assembly, cell adhesion and spreading, GPCR signaling, and vesicle priming. The inclusion of hyaluronan metabolism hints at ECM interactions during immune cell movement. Together, these terms point to coordinated activation and motility of leukocytes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030212","count":15},{"id":"GO:0002291","count":15},{"id":"GO:0035023","count":14},{"id":"GO:0043314","count":13},{"id":"GO:0060313","count":13}]},{"hash":"297436217184771147","title":"Neural development and axon guidance","description":"The cluster is strongly enriched for GO terms tied to neural development and connectivity: retina layer formation, limbic system development, axon extension and guidance, paranodal junction assembly, and juxtaparanode region localization. Additionally, regulation of synaptic vesicle endocytosis and positive regulation of apoptotic process appear among the top terms, suggesting neuronal signaling dynamics and cell fate considerations within developing neural tissue. While there are a couple of other morphogenesis terms (coronary artery morphogenesis, smooth muscle migration), the dominant theme is neural development and axon organization.","confidence":"High","size":23,"edges":13,"triangles":4,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0043065","count":11},{"id":"GO:0010842","count":11},{"id":"GO:1900242","count":11},{"id":"GO:0007275","count":9},{"id":"GO:0021761","count":9}]},{"hash":"1613829683997522039","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070562","count":3},{"id":"GO:0061158","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0042787","count":3}]},{"hash":"1217391090383416436","title":"Developmental signaling and cell cycle regulation","description":"The GO terms point to regulation of GTPase activity and various kinase activities (autophosphorylation, serine/threonine kinases), alongside multicellular and skin development, and hypoxia response. This suggests a cluster enriched for signaling pathways that coordinate development and cell-cycle processes, with some emphasis on epidermal differentiation. Overall, a cohesive theme of developmental signal transduction and growth regulation.","confidence":"Medium","size":23,"edges":68,"triangles":97,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0006469","count":6},{"id":"GO:0031954","count":6}]},{"hash":"898033436268791217","title":"mRNA Splicing Regulation and Translation Initiation","description":"This cluster centers on post-transcriptional RNA processing, especially regulation of mRNA splicing via the spliceosome (positive and negative regulation, and spliceosome assembly). It also includes terms related to translation initiation, such as eukaryotic initiation factor 4F complex assembly and regulation of translational initiation, plus small-subunit processome assembly, linking ribosome biogenesis to translation readiness. Together, these terms suggest a cohesive theme around mRNA processing coupled with translation initiation control.","confidence":"High","size":23,"edges":31,"triangles":22,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":9},{"id":"GO:0000381","count":9},{"id":"GO:0048026","count":8},{"id":"GO:0097010","count":8},{"id":"GO:0034462","count":8}]},{"hash":"1105855022961138842","title":"Cerebellar neuron development and axonogenesis","description":"The top GO terms point strongly to cerebellar neural development and axon growth (axonogenesis, cerebellar cortex formation, Bergmann glial differentiation, neuron development), suggesting this cluster reflects genes involved in cerebellar neuron differentiation and axon formation. Some terms like insulin signaling and T cell receptor signaling may reflect gene pleiotropy or broad annotations, but they do not override the cerebellar development theme.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":18},{"id":"GO:0048679","count":18},{"id":"GO:2001275","count":18},{"id":"GO:0008286","count":18},{"id":"GO:0050852","count":18}]},{"hash":"650395415588535586","title":"Retina morphogenesis and neural axon guidance","description":"The cluster shows strong signals for eye-related processes (retinol/retinal metabolic processes and eye morphogenesis/polarity) along with neural development signals (axonogenesis, axon guidance, and neuron migration). This combination suggests a shared theme around retina development and the associated neural wiring, with adhesion mechanisms likely supporting morphogenesis. Confidence: High","confidence":"","size":23,"edges":177,"triangles":896,"max_degree":19,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042572","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0048936","count":8},{"id":"GO:0097477","count":8},{"id":"GO:0070527","count":8}]},{"hash":"1113807428557485685","title":"Central metabolism and stress signaling","description":"The cluster centers on core energy metabolism (TCA cycle, pyruvate biosynthesis, glutamate catabolism) with accompanying signaling (calcium-mediated signaling and cAMP response) and defense-related responses (cellular responses to xenobiotics and alkaloids), suggesting a metabolic state linked to stress signaling. Some reproductive terms appear noisy, but the dominant theme is metabolism intertwined with signaling and xenobiotic response.","confidence":"Medium","size":23,"edges":173,"triangles":644,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":7},{"id":"GO:0006099","count":6},{"id":"GO:0042866","count":6},{"id":"GO:0001553","count":6},{"id":"GO:0052314","count":6}]},{"hash":"145675164847239297","title":"Neuronal development and myelination regulation","description":"The top GO terms cluster around cytoskeletal dynamics (Rho/Rac signaling), neurite/filopodium assembly, synaptic structural plasticity, and myelination, suggesting a group of proteins coordinating neural development, axon\u2013glia interactions, and maintenance of myelin in the nervous system, with some involvement in tissue morphogenesis. ","confidence":"High","size":23,"edges":19,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0009887","count":4},{"id":"GO:0051835","count":4},{"id":"GO:0031641","count":3},{"id":"GO:1900026","count":3}]},{"hash":"705976554720502840","title":"Regulated kinase signaling and cell proliferation","description":"The top GO terms highlight positive regulation of protein autophosphorylation and kinase activity, plus regulation of GTPase activity, which point to signaling control. The inclusion of mitotic cell cycle and skeletal muscle development suggests linkages to cell growth/division and differentiation, while nervous system development and mRNA transport add broader regulatory roles. Taken together, this cluster appears centered on signaling-driven regulation of growth and proliferation, with supportive roles in development and stress response.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031954","count":8},{"id":"GO:0008284","count":8},{"id":"GO:0071902","count":8},{"id":"GO:0071456","count":8},{"id":"GO:0043547","count":8}]},{"hash":"2011856157738037180","title":"Ribosome biogenesis and translation with mitochondrial assembly","description":"Top GO terms are dominated by ribosome-related processes (translation, ribosomal subunit and SSU-rRNA maturation, ribosome biogenesis), indicating a core cluster of proteins involved in making ribosomes and enabling protein synthesis. The presence of mitochondrial respiratory chain assembly and NADH-to-ubiquinone electron transport terms suggests additional mitochondrial machinery linked to energy production. Overall, the label captures the dominant ribosome biogenesis/translation theme with accompanying mitochondrial assembly components.","confidence":"Medium","size":23,"edges":230,"triangles":1434,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000027","count":3},{"id":"GO:0034553","count":3},{"id":"GO:0006120","count":2},{"id":"GO:0031564","count":2}]},{"hash":"751855303625003116","title":"Development and lipid metabolism","description":"The most frequent terms point to organismal development (multicellular development; CNS neuron development) and lipid-related metabolism (sterol import; vitamin D3 metabolic process), suggesting a cluster tied to growth and energy management in multicellular contexts. Some terms related to cell cycle and apoptosis appear secondary and do not define a single cohesive function.","confidence":"Medium","size":23,"edges":181,"triangles":878,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":22},{"id":"GO:0070640","count":22},{"id":"GO:0042523","count":22},{"id":"GO:2000775","count":22},{"id":"GO:0035376","count":22}]},{"hash":"1351585733483439121","title":"Eukaryotic translation initiation and spliceosome regulation","description":"The top terms cluster strongly around translation initiation (preinitiation complex formation, eIF4F assembly, translation reinitiation, and IRES-dependent initiation) with additional signals for spliceosome-mediated mRNA splicing and its regulation. This suggests a functional group tied to initiation of translation plus RNA processing/splicing regulation, hence a label capturing both themes. ","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":12},{"id":"GO:0001731","count":12},{"id":"GO:0006378","count":10},{"id":"GO:0006446","count":10},{"id":"GO:0075525","count":10}]},{"hash":"1356057894928938478","title":"Interferon-driven immune response cluster","description":"The top terms show strong enrichment for innate and adaptive immune responses, defense against bacteria and viruses, and type I interferon signaling, including positive regulation of STAT phosphorylation. While a few terms relate to neural development and ossification, the dominant theme is IFN-mediated immune defense and signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007157","count":4},{"id":"GO:0002250","count":4}]},{"hash":"960889671518136964","title":"Antifungal innate immunity with neutrophil chemotaxis","description":"This cluster is dominated by GO terms tied to innate immune defense against fungal origin, neutrophil chemotaxis, and phagocytosis, with supporting signals from interferon pathways, integrin signaling, and cytoskeletal dynamics (Rho signaling and receptor internalization). Collectively, these terms point to coordinated innate immune activation and neutrophil-mediated defense.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":11},{"id":"GO:0060337","count":9},{"id":"GO:0030593","count":9},{"id":"GO:0071560","count":9},{"id":"GO:0007229","count":9}]},{"hash":"1439694449500698405","title":"Stress granule and P-body assembly regulation","description":"The strongest signals in this cluster are GO terms for stress granule assembly and P-body assembly, along with regulation of cytoplasmic mRNA processing body assembly, indicating a focus on RNA granule dynamics and mRNA regulation. While there are related terms about microtubule regulation, receptor internalization, and development, the core theme appears to be RNA-processing granules and their regulation, which justifies the label. ","confidence":"High","size":23,"edges":24,"triangles":33,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":6},{"id":"GO:1905833","count":5},{"id":"GO:0010603","count":5},{"id":"GO:0034063","count":5},{"id":"GO:0033962","count":5}]},{"hash":"29414845659421346","title":"Xenobiotic and Nutrient Membrane Transporters","description":"The cluster shows strong enrichment for transmembrane transport of xenobiotics, vitamins, potassium, and glucose, indicating it mainly consists of membrane transporter proteins mediating uptake/export of diverse substrates. This includes xenobiotic transport, vitamin transport, and glucose-related transport terms, supporting a unified membrane transport function.","confidence":"High","size":23,"edges":23,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":23},{"id":"GO:0035461","count":23},{"id":"GO:0071805","count":19},{"id":"GO:0042908","count":19},{"id":"GO:0042891","count":17}]},{"hash":"1377634356902478005","title":"Transmembrane Transport of Ions and Metabolites","description":"The cluster is enriched for transmembrane transport terms covering ions (sodium, potassium, nitrate) and various metabolites (arabinose, fucose, vitamin, 4-hydroxyphenylacetate), plus vesicle-mediated trafficking (ER to Golgi), pointing to a cohesive role in membrane transport and related trafficking; a couple of non-transport terms may reflect broader cellular context or annotation noise.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0006004","count":3}]},{"hash":"172834674143868370","title":"DNA replication, repair, and cell cycle","description":"These proteins show strong enrichment for DNA repair, DNA replication, and mitotic cell cycle terms (each with 21 annotations), along with DNA-templated transcription and meiotic spindle organization, pointing to genome maintenance and chromosome dynamics during cell division; a few metabolic terms may reflect broader protein roles or annotation artifacts.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006281","count":21},{"id":"GO:0006260","count":21},{"id":"GO:0000278","count":21},{"id":"GO:0006351","count":21},{"id":"GO:0000212","count":20}]},{"hash":"1788389399777576634","title":"Diverse organic compound catabolism","description":"This cluster shows a broad set of catabolic GO terms spanning lipids (triglyceride and phospholipid processing), carbohydrates (cellulose), and aromatic/plant-derived compounds (stilbene, beta-ketoadipate pathway, chlorophyll), along with detoxification and response to toxic substances. The unifying theme is enzymatic breakdown of a wide range of organic substrates and associated detoxification processes, rather than a single specific pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:0030245","count":6},{"id":"GO:0098869","count":6},{"id":"GO:0046839","count":6},{"id":"GO:0097755","count":6}]},{"hash":"858899867891574975","title":"Neuronal Synaptic Transmission and Ion Channel Signaling","description":"The cluster is dominated by GO terms for ion transport across membranes (sodium and potassium), synaptic signaling (excitatory postsynaptic potential, ionotropic glutamate receptor signaling, GABA signaling), and behaviors linked to neural circuits (locomotory behavior, conditioned taste aversion), indicating proteins involved in neuronal communication and ion channel regulation. Some terms (viral release, peptidoglycan catabolic process) appear as noise or annotation artifacts and do not define the core function of the cluster.","confidence":"High","size":23,"edges":46,"triangles":14,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":23},{"id":"GO:0060079","count":23},{"id":"GO:0035725","count":23},{"id":"GO:0001661","count":21},{"id":"GO:0007214","count":21}]},{"hash":"1570559478658210372","title":"Immune activation and neural axon guidance via adhesion","description":"The top GO terms cluster around cell adhesion (heterophilic/homophilic) and immune signaling (complement activation, T cell costimulation, T cell proliferation), plus neural guidance (semaphorin-plexin signaling, sympathetic neuron projection guidance). This suggests a theme of adhesion-mediated signaling coordinating immune responses and neural development/guidance, possibly at immune-nervous system interfaces.","confidence":"Medium","size":23,"edges":84,"triangles":56,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0006958","count":13},{"id":"GO:0031295","count":12},{"id":"GO:0048672","count":12},{"id":"GO:0000187","count":12}]},{"hash":"1986150418107629750","title":"Immune cytotoxic effector responses","description":"The top GO terms point to immune surveillance and cytotoxic effector functions, including NK cell\u2013mediated cytotoxicity, cytotoxic T cell differentiation, gamma-delta T cell activation, detection of tumor cells, and neutrophil homeostasis, along with defense against bacteria. Some terms relate to neural junctions or axon guidance, but the strongest signal is immune effector activity, supporting a label centered on cytotoxic/immune defense pathways.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":5},{"id":"GO:0030913","count":5},{"id":"GO:2001046","count":5},{"id":"GO:0021966","count":4},{"id":"GO:0002415","count":4}]},{"hash":"2303161651360025222","title":"RNA Processing and Ribosome Biogenesis","description":"The top terms skew toward RNA maturation and ribosome assembly (ITS1 rRNA cleavage, SSU rRNA maturation, spliceosome-mediated splicing, and large subunit biogenesis). A few neural-development terms are present, but the core signal is RNA processing and ribosome biogenesis rather than brain development.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0001843","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0042273","count":3}]},{"hash":"2248860432634149127","title":"Histone modification and transcription regulation","description":"The cluster\u2019s top GO terms center on histone modifications (H3/H4 acetylation and methylation) and transcription-related processes (DNA-templated transcription, RNA Pol II\u2013driven transcription, mRNA processing), suggesting a chromatin-modifying/epigenetic regulation role that modulates transcription and possibly cell cycle dynamics.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2116717966463286422","title":"Immune activation and tissue morphogenesis","description":"The cluster shows enrichment for immune-related processes (basophil activation, complement activation via lectin pathway, cellular response to fungal origin, NK cell chemotaxis regulation, inflammatory mediator release via arachidonate) alongside developmental/morphogenesis terms (lymph vessel morphogenesis, cartilage condensation, metanephric distal tubule morphogenesis). This suggests proteins involved in immune signaling that also participate in tissue remodeling, hence the combined label.","confidence":"Medium","size":23,"edges":97,"triangles":331,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":13},{"id":"GO:0072287","count":13},{"id":"GO:0001502","count":13},{"id":"GO:0060355","count":13},{"id":"GO:0051873","count":13}]},{"hash":"425978012552954240","title":"Rho-GTPase\u2013driven actin remodeling and cell spreading","description":"This cluster is dominated by GO terms related to actin cytoskeleton organization, regulation of Rho signaling, and GTPase activation, pointing to dynamic cytoskeleton remodeling and cell spreading. Additional signals for calcium/NFAT pathways suggest signaling cross-talk that can influence adhesion, with a lipid transport term appearing as a weaker outlier. Overall, the main theme is cytoskeleton dynamics governed by Rho/GTPase pathways and cell spreading.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0035621","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0090630","count":3}]},{"hash":"45381860463484793","title":"B cell receptor signaling and cytoskeletal regulation","description":"The top GO terms cluster around B cell signaling and proliferation, while several terms point to actin cytoskeleton organization, cell migration, and polarity/barrier establishment. This suggests a theme where B cell activation signals coordinate cytoskeletal dynamics and cell\u2013cell/epithelial interactions, so a label that captures both immune signaling and cytoskeletal control is appropriate.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0051017","count":7},{"id":"GO:0090162","count":7},{"id":"GO:0016477","count":7}]},{"hash":"429205412363316526","title":"Peroxisomal protein import and receptor recycling","description":"Top GO terms cluster around peroxisomal matrix protein import (GO:0016558, GO:0016562) and receptor recycling, with ubiquitination (GO:0085020) and related post-translational modifications (PARylation) supporting receptor turnover. Other terms about transcription regulation and cell division appear incidental, making the core theme peroxisomal import and receptor recycling via ubiquitination.","confidence":"High","size":23,"edges":23,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0085020","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0070212","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1296890106998658047","title":"DNA damage response and homologous recombination repair","description":"The cluster\u2019s top GO terms are strongly centered on DNA damage response and repair, especially double-strand break repair via homologous recombination and interstrand cross-link repair, plus related checkpoint signaling and ubiquitin-dependent protein turnover. While a couple of terms touch development, the dominant signal points to DDR pathways, implying these proteins function together in sensing, signaling, and repairing DNA damage. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035019","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0010569","count":2},{"id":"GO:0036297","count":2}]},{"hash":"1535917552893801501","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0000387","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0032929","count":2},{"id":"GO:0040016","count":2}]},{"hash":"1177713598415115699","title":"Embryonic organogenesis and neural development","description":"This cluster shows strong enrichment for morphogenesis and development across multiple organs (eye, brain/spinal cord, lung, pancreas) during embryogenesis, with an underlying role in transcriptional regulation. The common theme is broad embryonic organ formation and neural patterning rather than a single pathway, justifying the label.","confidence":"High","size":23,"edges":215,"triangles":1092,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0060441","count":12},{"id":"GO:0048048","count":12},{"id":"GO:0043010","count":12},{"id":"GO:0031018","count":9}]},{"hash":"638733799325277090","title":"Neural development and synaptic plasticity","description":"The cluster\u2019s top GO terms cluster around neural development and function: neurogenesis, myelination, and long-term potentiation, complemented by cytoskeletal/cell-adhesion regulation (Rho/GTPase signaling). This suggests a neuronal maturation/synaptic formation module, with signaling and adhesion guiding neurite outgrowth and synapse formation. Peripheral terms like angiogenesis and LPS response may reflect broader brain vascular/immune interactions but do not outweigh the neural-development theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0007155","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0016525","count":6},{"id":"GO:0043552","count":5}]},{"hash":"1669754127071973241","title":"Cartilage ECM Formation and Chondrocyte Differentiation","description":"This cluster centers on extracellular matrix formation relevant to cartilage: collagen fibril organization, cartilage condensation, and regulation of chondrocyte differentiation. It also features signaling links to growth and gene expression, including TGF-beta pathway modulation and angiogenesis, consistent with a cartilage development/ECM remodeling program. A few terms like lung development or coagulation may reflect shared ECM biology rather than a cartilage-specific function.","confidence":"Medium","size":23,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0001502","count":4},{"id":"GO:0030324","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0007596","count":3}]},{"hash":"705189492673165841","title":"Neuronal morphogenesis and mitochondrial dynamics","description":"This cluster is enriched for GO terms related to neuron structure formation (dendrite morphogenesis, axon extension) and mitochondrial organization (intracellular distribution of mitochondria, negative regulation of mitochondrial fission, microtubule sliding), suggesting coordinated neurite outgrowth with organelle trafficking. A palate development term appears but is less central; overall the dominant theme points to neuronal development with mitochondrial dynamics.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032091","count":3},{"id":"GO:0060021","count":2},{"id":"GO:0097202","count":2},{"id":"GO:0051012","count":2},{"id":"GO:0090258","count":2}]},{"hash":"1099131805627729069","title":"Developmental signaling and immune response","description":"The top GO terms span developmental processes (midbrain and trigeminal ganglion development, Wnt signaling, single fertilization) and immune-related activities (complement activation pathways, response to lipopolysaccharide, response to yeast), with an additional note on transcriptional regulation. This suggests a multifunctional cluster linking developmental signaling with immune modulation rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0006958","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0030574","count":5}]},{"hash":"2292497207242292703","title":"Neural Adhesion and Synapse Assembly","description":"Top terms converge on neuronal cell adhesion, receptor organization, and synapse assembly, plus signals guiding interneuron migration. Though keratinocyte differentiation appears, most terms point to neural development and synaptic connectivity.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030216","count":11},{"id":"GO:0055114","count":11},{"id":"GO:0007213","count":10},{"id":"GO:0043113","count":10},{"id":"GO:0030913","count":10}]},{"hash":"1678771119722767317","title":"Unknown","description":"The GO terms are varied across development (spermatid development, neurogenesis), stress responses (response to hydrogen peroxide, response to virus), apoptosis, and signaling regulation (ERK cascade), with no single cohesive function that ties all proteins together. This heterogeneity makes it hard to assign a specific, representative label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0009615","count":2}]},{"hash":"234301162904632433","title":"Innate immunity and cytoskeletal dynamics","description":"This cluster shows strong enrichment for innate immune response, actin filament bundle assembly, and cell migration, plus endocytic processes like pinocytosis and signaling-related terms (e.g., Wnt pathway). Together, these point to a core theme of immune signaling coupled to cytoskeletal remodeling and cellular movement, despite some older/obscure terms in the set.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0007205","count":7},{"id":"GO:0033280","count":7}]},{"hash":"911027161374931962","title":"Oxidative Stress Proteostasis","description":"This cluster includes GO terms for cellular response to hydrogen peroxide, ubiquitin-dependent protein catabolic processes, protein complex assembly, and chaperone-related folding, suggesting a theme of maintaining protein quality and turnover under stress and coordinating assembly of protein complexes, including antiviral-related responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0051291","count":3},{"id":"GO:1903646","count":2},{"id":"GO:2000531","count":2},{"id":"GO:1903070","count":2}]},{"hash":"1572451598875829950","title":"Immune signaling and inflammatory response","description":"The top GO terms cluster around B cell receptor signaling, germinal center formation, NF-kappaB\u2013related transcription, inflammatory responses, and innate pathogen recognition (LPS/peptidoglycan signaling). While some terms touch hematopoietic/muscle development, the dominant theme is immune activation and inflammatory signaling, which best explains the cluster. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0035855","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0035994","count":4}]},{"hash":"1712503310502214812","title":"Male reproductive development and cell division","description":"This cluster is enriched for GO terms related to the mitotic cell cycle and cell division, along with male reproductive development aspects such as prostate gland development and steroid hormone receptor complex assembly. These together suggest a theme of proliferative processes tied to male reproductive biology, with some additional stress/response terms appearing as secondary signals. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006463","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0046661","count":6},{"id":"GO:0030850","count":6}]},{"hash":"1857298932865854159","title":"Embryonic development and organ morphogenesis","description":"The top GO terms are dominated by developmental and organogenesis processes across tissues (pancreas development, placenta/placental differentiation, cartilage morphogenesis, left-right patterning, and EMT-related heart formation), indicating a cluster of proteins involved in embryonic differentiation and tissue formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0003323","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0060707","count":16},{"id":"GO:0060806","count":16}]},{"hash":"391184946403305765","title":"Retroviral DNA Integration and Latency","description":"The GO terms cluster around retroviral processes: reverse transcription (RNA-templated DNA biosynthesis), DNA replication and integration, proviral latency, and viral entry/penetration into the host nucleus, with associated DNA recombination and cell-cycle effects. Some host-pathogen interaction terms reinforce a viral infection/lifecycle theme, justifying a label focused on retroviral DNA integration and latency.","confidence":"High","size":22,"edges":111,"triangles":179,"max_degree":19,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":12},{"id":"GO:1900087","count":11},{"id":"GO:0006260","count":8},{"id":"GO:0039651","count":7},{"id":"GO:0046718","count":7}]},{"hash":"2286251772418711791","title":"Developmental and Immune Signaling","description":"The top GO terms cover developmental processes (kidney and nervous system development, myoblast fusion) and multiple signaling pathways (roundabout/ROBO, Hedgehog/Smoothened, Rho signaling), plus immune-related pathways (T cell receptor signaling, IL-27 signaling, Th2 cytokine production) and apoptotic cell clearance. This points to a cluster of proteins involved in diverse signaling events that coordinate development and immune responses rather than a single, narrow function.","confidence":"Medium","size":22,"edges":204,"triangles":1070,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035385","count":12},{"id":"GO:0001822","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0007399","count":12},{"id":"GO:0007224","count":12}]},{"hash":"1676404936805431101","title":"Neuronal cytoskeleton remodeling and GTPase signaling","description":"The top GO terms cluster around actin dynamics (filopodium assembly and its regulation, adhesion-dependent spreading) and small GTPase-mediated signaling, with a neuronal context suggested by GABAergic synaptic transmission and a mitochondrial fission term. This points to a module where cytoskeleton remodeling and GTPase-driven signaling intersect in neurons, possibly coordinating protrusion, trafficking, and synaptic function.","confidence":"Medium","size":22,"edges":21,"triangles":0,"max_degree":21,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":16},{"id":"GO:0051932","count":16},{"id":"GO:0046847","count":16},{"id":"GO:0000266","count":16},{"id":"GO:0051489","count":16}]},{"hash":"1938863116682474561","title":"Neural development and brain morphogenesis","description":"The cluster\u2019s top GO terms cluster around neural development and brain morphogenesis\u2014neurogenesis, optic nerve morphogenesis, and corpus callosum development\u2014suggesting the proteins co-function in neural formation and connectivity. Some terms (vagina development, muscle filament assembly, apoptotic processes) appear as outliers, but the dominant theme is brain development.","confidence":"High","size":22,"edges":224,"triangles":1405,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0022008","count":11},{"id":"GO:0008284","count":11},{"id":"GO:0060068","count":11},{"id":"GO:0006915","count":11},{"id":"GO:0071688","count":10}]},{"hash":"2275040947435039872","title":"Ribosome Biogenesis and Protein Translation","description":"This cluster is dominated by GO terms related to translation, cytoplasmic translation, and ribosome biogenesis, indicating a core theme of protein synthesis machinery. While there are a few auxiliary terms (cell cycle, aging, mitochondrial processes, nucleotide biosynthesis) present, the strongest and most consistent signal across the terms points to ribosome assembly and the translation apparatus as the shared function of these proteins.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007049","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0001300","count":3}]},{"hash":"397361702568775556","title":"Retroviral integration and transposon activity","description":"The cluster shows strong representation of GO terms tied to DNA integration, proviral latency, DNA replication, and transposable element silencing, plus terms for viral entry and nuclear penetration, and DNA recombination. This points to a core theme of retroviral/proviral life cycle and transposon-driven genome rearrangements within the host, with associated host-pathogen interactions and genome remodeling. The presence of transcription-related terms provides additional context but does not override the central retroviral/transposon focus.","confidence":"High","size":22,"edges":52,"triangles":36,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":7},{"id":"GO:0075713","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0010526","count":5},{"id":"GO:0039651","count":5}]},{"hash":"1684468557761041302","title":"RNA processing and translation regulation","description":"The cluster includes multiple GO terms centered on mRNA splicing via the spliceosome and regulation of translational initiation/translation reinitiation, plus formation of translation preinitiation complexes, linking RNA processing to post-transcriptional control of gene expression. Additional terms for regulatory ncRNA-mediated silencing and IRES-dependent viral translation reinforce a cohesive theme around RNA metabolism and translation control rather than a single enzymatic function.","confidence":"High","size":22,"edges":186,"triangles":880,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0045292","count":9},{"id":"GO:0048026","count":9}]},{"hash":"2234421470220869567","title":"Golgi-ER trafficking and receptor recycling","description":"Based on the GO terms, the cluster is enriched for ER-to-Golgi vesicle transport, Golgi ribbon formation, and positive regulation of receptor recycling, indicating a coherent secretory pathway/ Golgi organization function. Some developmental or metabolic terms appear as secondary annotations but do not define the core theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0043066","count":2}]},{"hash":"1369886751268345238","title":"Mitosis and Chromosome Assembly","description":"The cluster is dominated by terms tied to DNA replication, cell division, centromeric chromatin (CENP-A) assembly, and microtubule dynamics, all central to mitosis and chromosome maintenance, with ancillary roles in protein trafficking and folding that do not override this core theme.","confidence":"High","size":22,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0051013","count":12},{"id":"GO:0070389","count":12},{"id":"GO:0001824","count":12},{"id":"GO:0051301","count":12}]},{"hash":"27373237812761475","title":"Protein and RNA modification network","description":"This cluster shows a strong enrichment for post-translational modification processes (protein sumoylation, deubiquitination, ufmylation, C-terminal lipidation) and RNA modification pathways (tRNA wobble uridine thiolation, cyclic t6A biosynthesis). The common theme ties to cellular modification systems that regulate protein and RNA function, with a few supplementary terms reflecting broader regulation or metabolism. ","confidence":"High","size":22,"edges":221,"triangles":1363,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":11},{"id":"GO:0016579","count":8},{"id":"GO:0007113","count":7},{"id":"GO:0002143","count":7},{"id":"GO:1990592","count":7}]},{"hash":"1820349634204340355","title":"Acetylation-Linked Metabolic Pathways","description":"The cluster is dominated by acetylation-related GO terms (peptidyl-lysine N6-acetylation, histone H4 acetylation, spermine acetylation) and metabolism of acetylated compounds such as N-acetylglucosamine and glucosamine, with melatonin biosynthesis also interconnected through acetyltransferase activity. Additional entries on polyamine catabolism and mycothiol biosynthesis further point to acetylation chemistry across different biological contexts, supporting a cohesive theme of acetylation-driven metabolism.","confidence":"Medium","size":22,"edges":145,"triangles":684,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:2000025","count":16},{"id":"GO:0018003","count":16},{"id":"GO:0006044","count":16},{"id":"GO:0043967","count":16},{"id":"GO:0006041","count":16}]},{"hash":"135813313173764522","title":"mRNA processing and translational regulation","description":"This cluster shows strong enrichment for regulation of mRNA splicing and multiple aspects of translation initiation and reinitiation, including preinitiation complex formation, eIF4F assembly, and IRES-dependent initiation, as well as stress-related mRNA stability and regulatory ncRNA silencing. The shared theme is post-transcriptional control of gene expression at both RNA processing and translation levels, making a combined label appropriate.","confidence":"High","size":22,"edges":160,"triangles":536,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":15},{"id":"GO:0006446","count":15},{"id":"GO:0075525","count":15},{"id":"GO:0002188","count":15},{"id":"GO:0010610","count":15}]},{"hash":"1946858395711158752","title":"Innate Immune Signaling and Epithelial Development","description":"This cluster is dominated by innate immune pathways, with terms for Toll-like receptor signaling, Toll signaling, non-canonical NF-kappaB activation, and regulation of cytokine production, indicating immune signaling activity. It also includes keratinocyte differentiation and collagen fibril organization, pointing to epithelial tissue dynamics and extracellular matrix remodeling, suggesting a broader theme of tissue development linked to immune signaling. Some morphogenesis terms are present but seem less central to the core function.","confidence":"Medium","size":22,"edges":25,"triangles":4,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0006469","count":5},{"id":"GO:0030216","count":4},{"id":"GO:0090260","count":4},{"id":"GO:0072287","count":4}]},{"hash":"2010828220286751788","title":"Xenobiotic and nutrient transmembrane transporters","description":"This cluster is dominated by GO terms for membrane transport of xenobiotics, vitamins, and nutrients (xenobiotic/vitamin transmembrane transport, potassium ion transport, D-glucose transmembrane transport, and insulin-stimulated glucose import). The convergence on various substrate translocations suggests a shared role in transmembrane transport of xenobiotics and essential nutrients, with supporting metabolic context like glucose starvation and vitamin metabolism.","confidence":"High","size":22,"edges":183,"triangles":774,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":22},{"id":"GO:0035461","count":22},{"id":"GO:0071805","count":20},{"id":"GO:0042908","count":20},{"id":"GO:0042891","count":18}]},{"hash":"1763372352464311913","title":"RNA splicing and translation regulation","description":"This cluster centers on RNA processing and control of protein synthesis, with GO terms highlighting spliceosome-mediated mRNA splicing regulation (positive/negative) and regulation of translational initiation, including formation of the translation preinitiation complex and IRES-dependent viral translation. The group appears to comprise proteins involved in RNA metabolism and translation control, rather than a single pathway, with a peripheral mention of mitotic cell cycle activity. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0048025","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0075525","count":4}]},{"hash":"2267321999364727537","title":"Viral entry and proviral latency","description":"The cluster shows GO terms centered on viral interaction with host cells: viral penetration into the host nucleus and establishment of integrated proviral latency, along with DNA integration, indicating viral genome insertion and maintenance. While ribosome biogenesis and phosphorylation are broader cellular processes, they can accompany infection, but the dominant themes are virus\u2013host entry and genome integration.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0016310","count":5},{"id":"GO:1903833","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006260","count":3}]},{"hash":"875813894297417705","title":"Meiosis, Chromosome Pairing, and Nuclear Migration","description":"The enriched GO terms cluster around chromosome dynamics and movement: homologous chromosome pairing at meiosis, centromere clustering, centrosome localization, and nucleokinesis/nuclear migration along microfilaments. The inclusion of spermatogenesis supports a meiotic context, and radial glia\u2013related nucleokinesis hints at broader developmental nuclear movement. Translation and mitochondrial protein import are general cellular processes and less defining for this cluster. Overall, the cluster captures meiotic chromosome dynamics and associated nuclear movements.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007283","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0021817","count":2}]},{"hash":"1277425395731702560","title":"Membrane Transport Proteins","description":"The cluster is dominated by transmembrane transport GO terms (fructose, bicarbonate, chloride, L-aspartate, oxalate transport), suggesting a shared role as membrane transporters. While some terms (sperm capacitation, gastric acid secretion, transcription regulation) are unrelated or contextual, the recurring theme is transport across membranes, justifying a transporter-focused label. Confidence: Medium","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048240","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0030435","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0015755","count":3}]},{"hash":"743704762149849633","title":"B cell activation and innate immunity","description":"The top GO terms point strongly to adaptive immune activation (B cell affinity maturation, B cell receptor signaling) and innate immunity (innate immune response, mast cell proliferation), with supporting processes like phagocytosis and cell adhesion that facilitate immune interactions. While a few terms (bone development, enzyme-related processes) are broader, the dominant theme is immune signaling and activation across adaptive and innate arms.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002344","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0060348","count":9},{"id":"GO:1900026","count":8}]},{"hash":"2196096371900410141","title":"Viral life cycle and host response","description":"Top GO terms cluster around viral processes (virion assembly, viral release, DNA integration, proviral latency) and host interactions (MyD88-dependent TLR4 signaling, miRNA catabolic process, transcription regulation). This suggests a theme of viruses exploiting or interacting with host machinery. However, since the cluster shows no measurable connectivity (edges/triangles are zero), the association is broad rather than tightly cohesive. Nonetheless, the most representative shared function appears to be involvement in viral lifecycle and host response.","confidence":"Low","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035660","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0007527","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0039651","count":2}]},{"hash":"205180972149719246","title":"GPCR signaling in inflammation and vascular permeability","description":"The cluster is enriched for GPCR signaling pathways (opsin signaling, adenosine receptor signaling, PLC activation) alongside immune-vascular processes such as neutrophil chemotaxis and killing, regulation of vascular permeability, and IL-1\u03b2 production, with a gut-related context suggested by enteric smooth muscle differentiation and endothelial barrier regulation.","confidence":"High","size":22,"edges":206,"triangles":1120,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":22},{"id":"GO:1903141","count":22},{"id":"GO:0016056","count":22},{"id":"GO:0007202","count":22},{"id":"GO:0010579","count":22}]},{"hash":"292089212980131638","title":"Eye and neural development","description":"The cluster\u2019s top GO terms cluster around ocular morphogenesis and nervous system development (e.g., camera-type eye development, embryonic eye morphogenesis, cerebellum development, and motor neuron axon guidance), with additional signals of transcriptional regulation during development (RNA polymerase II transcription and its negative regulation). This pattern suggests a group of proteins involved in coordinating eye formation and neural patterning. ","confidence":"High","size":22,"edges":10,"triangles":0,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0006366","count":15},{"id":"GO:0008045","count":14},{"id":"GO:0048048","count":14},{"id":"GO:0060441","count":13}]},{"hash":"1951630169280918549","title":"Embryonic development and organ morphogenesis","description":"The cluster\u2019s top GO terms cluster around multicellular organism development and morphogenesis across cranial and organ systems (cranial skeleton, nerves, ear, lung branching, pancreas, etc.), indicating a broad role in embryonic patterning and organ formation. This supports a label focused on developmental morphogenesis rather than a single tissue type.","confidence":"High","size":22,"edges":46,"triangles":0,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":19},{"id":"GO:2000836","count":18},{"id":"GO:0021642","count":18},{"id":"GO:0060441","count":18},{"id":"GO:0021889","count":18}]},{"hash":"1293353639646476399","title":"GPCR-cAMP Cardiovascular and Metabolic Regulation","description":"The cluster centers on adenylate cyclase-activating GPCR signaling and activation of adenylate cyclase, indicating cAMP-mediated pathways. This is reinforced by strong links to blood pressure regulation, membrane potential control, thermogenesis, and temperature-response processes, plus pain perception. Additional terms point to vascular and smooth muscle functions (endothelial barrier regulation, enteric smooth muscle differentiation) and energy metabolism (electron transport chain). Taken together, the proteins likely participate in GPCR-driven signaling that coordinates vascular tone, metabolic regulation, and associated cellular responses.","confidence":"High","size":22,"edges":15,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":16},{"id":"GO:0019233","count":15}]},{"hash":"1632751546491584759","title":"Mitosis and intracellular trafficking regulation","description":"A cluster centered on cell division and mitochondrial/Golgi/endosomal dynamics, with accompanying ubiquitin-mediated proteolysis and regulation of GTPases, suggests a cohesive theme of coordinating mitotic progression with intracellular trafficking and protein turnover.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0048312","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1306306840061489517","title":"Fatty acid oxidation and energy metabolism","description":"The cluster is enriched for long- and medium-chain fatty acid catabolic processes and the carnitine metabolic pathway, which together point to fatty acid beta-oxidation and related energy production. Additional terms like gluconeogenesis regulation and valine catabolism support a broader energy-metabolism theme. Some organ-development terms (heart, kidney) may reflect tissue-specific roles or annotation noise rather than core function of the cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009409","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001822","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0042758","count":2}]},{"hash":"201995253720407217","title":"Developmental and Immune Signaling","description":"The top GO terms mix development-related processes (multicellular organism development, heart and nervous system development) with immune signaling (innate immune response, B cell receptor signaling) and cell adhesion. The absence of edges suggests these proteins participate in diverse signaling roles rather than a single cohesive pathway, but the shared theme is signaling tied to tissue development and immune communication, justifying a combined label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007507","count":3}]},{"hash":"598635310320662510","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The cluster\u2019s top GO terms are dominated by ubiquitin-related catabolic processes and degradation via the proteasome (e.g., ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination), pointing to a shared role in tagging and destroying proteins. Additional terms touch on cell cycle regulation and apoptosis, consistent with proteostasis and protein turnover impacting proliferation and cell fate. Despite some obsolete terms, the core theme is clear: ubiquitin-proteasome\u2013driven protein degradation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0031146","count":12},{"id":"GO:0000083","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0016567","count":8}]},{"hash":"2155033151286559612","title":"Vesicle trafficking and endocytosis regulation","description":"The top GO terms cluster around vesicle dynamics\u2014positive regulation of vesicle fusion, synaptic vesicle maturation, receptor-mediated endocytosis, and intracellular transport\u2014with Rho signaling linking cytoskeletal changes to trafficking. While some terms touch on neutrophil degranulation and vascular remodeling, the shared theme is regulation of vesicle trafficking and membrane trafficking processes across cell types.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0016188","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0048260","count":2},{"id":"GO:1903861","count":2}]},{"hash":"2038774551443117170","title":"Rho/Ras signaling in synaptic plasticity","description":"These proteins cluster around neuronal signaling and synaptic plasticity: regulation of Rho and other GTPases, synapse assembly, and long-term potentiation, pointing to cytoskeletal dynamics and signaling events that modulate synaptic strength. While terms like IP3 biosynthesis and insulin signaling appear, the dominant theme is Rho/Ras-mediated modulation of synaptic function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0032959","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0009395","count":4}]},{"hash":"62195064927677206","title":"Embryogenesis and Organ Differentiation Regulation","description":"This cluster is enriched for embryonic development and organogenesis terms, including pancreatic cell development, left-right patterning, cartilage morphogenesis, and endocrine system development, along with transcriptional regulation, suggesting these proteins coordinate developmental patterning and tissue differentiation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":18},{"id":"GO:0003198","count":18},{"id":"GO:0060972","count":18},{"id":"GO:0060707","count":18},{"id":"GO:0060806","count":18}]},{"hash":"558203983299723496","title":"Ribosome biogenesis and RNA/Protein methylation","description":"The Top Terms are dominated by RNA and protein methylation processes (tRNA methylation, rRNA methylation, N-terminal methylation variants, arginine methylation) and by nuclear export of the small ribosomal subunit, which together point to a theme around ribosome assembly and function enhanced by methylation. Some terms about responses to xenobiotics or cocaine appear but are less central to this core function. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0018013","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0010189","count":2},{"id":"GO:0035573","count":2}]},{"hash":"1217636070401020241","title":"Ion and small molecule transport","description":"The top GO terms point to transport activities across membranes for ions and small molecules (GABA, ammonium, carnitine, polyamines, etc.) and cell volume homeostasis, with several terms about regulation of transmembrane transport. Although a couple of terms are obsolete or less coherent (developmental terms), the prevailing signal is membrane transport of solutes, indicating a cohesive but diverse transporter-related cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0071477","count":4},{"id":"GO:1902274","count":4},{"id":"GO:0015812","count":4},{"id":"GO:0035826","count":4},{"id":"GO:0070634","count":4}]},{"hash":"2113499739677788360","title":"Steroid and xenobiotic metabolism","description":"The top GO terms point to steroid-related biosynthesis and catabolism (aldosterone biosynthesis, brassinosteroid homeostasis, vitamin D catabolic, reproductive development linked to steroids) along with broad detox/catabolic processing of xenobiotics (carbazole, dioxin, alkaloids, insecticides, cesium response). The common thread appears to be metabolic processing of steroids and foreign compounds, suggesting a functional cluster around steroid and xenobiotic metabolism rather than a single pathway. ","confidence":"Medium","size":21,"edges":58,"triangles":58,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":11},{"id":"GO:0010268","count":10},{"id":"GO:0019341","count":10},{"id":"GO:0010164","count":10},{"id":"GO:0017143","count":10}]},{"hash":"1306045983711576992","title":"Developmental Signaling and Chromatin Regulation","description":"The top GO terms point to development across tissues (angiogenesis, skeletal and neuron development) and metabolism (vitamin D3) with additional regulatory signals (STAT tyrosine phosphorylation) and chromatin/mitotic processes (histone phosphorylation, spindle organization). This suggests a cluster of proteins involved in developmental signaling and regulation of gene expression through signaling and chromatin mechanisms rather than a single tissue-specific function.","confidence":"Medium","size":21,"edges":10,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001525","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0032092","count":6},{"id":"GO:0048666","count":6},{"id":"GO:0006349","count":6}]},{"hash":"1840562954267098911","title":"Neural and muscular development","description":"This cluster is strongly enriched for nervous system development terms (nervous system development, neurogenesis, peripheral nervous system development, myelination) and for muscle-related processes (myoblast differentiation, striated muscle myosin thick filament assembly), suggesting coordinated neural and muscle development. Hedgehog and Slit-Robo signaling terms further support developmental patterning, while kidney development and T cell signaling appear as additional, less central associations.","confidence":"High","size":21,"edges":206,"triangles":1260,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":13},{"id":"GO:0035385","count":13},{"id":"GO:0007224","count":13},{"id":"GO:0001822","count":12},{"id":"GO:0022008","count":12}]},{"hash":"502922473790718664","title":"Mitotic spindle dynamics and microtubule transport","description":"Top terms cluster around microtubule dynamics and mitosis\u2014minus- and plus-end microtubule activities, spindle pole separation, kinetochore attachment, nuclear migration along microtubules, and plus-end vesicle transport; plus cytokinesis via cell plate formation. These together indicate a dominant theme of spindle assembly and microtubule-based transport.","confidence":"High","size":21,"edges":90,"triangles":150,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0031534","count":17},{"id":"GO:0000073","count":17},{"id":"GO:0070462","count":17},{"id":"GO:0036334","count":17},{"id":"GO:0032487","count":17}]},{"hash":"290393769708162018","title":"Circadian Transcription in Neural Development","description":"The dominant GO terms cluster around transcription by RNA polymerase II and circadian regulation of gene expression, with developmental signals like in utero embryonic development and neuron maturation, indicating a focus on circadian-controlled transcription during neural development.","confidence":"High","size":21,"edges":110,"triangles":247,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0045872","count":6},{"id":"GO:0043433","count":6},{"id":"GO:0032922","count":6}]},{"hash":"708192597556868723","title":"Neuronal development and synapse regulation","description":"The cluster\u2019s top GO terms cluster around neural development, synapse assembly, and regulation of synaptic activity, along with Rho-mediated signal transduction and endocytosis, which are key in neurite outgrowth, spine formation, and receptor trafficking. Although some terms (angiogenesis, ABA signaling) are less aligned or possibly misannotations, the dominant theme is CNS development and synaptic regulation, so this label captures the main function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":12},{"id":"GO:0007416","count":10},{"id":"GO:0007420","count":9},{"id":"GO:0070086","count":9},{"id":"GO:0016525","count":9}]},{"hash":"1114227911636533384","title":"Developmental signaling and metabolism","description":"The top GO terms point to development (multicellular organism development, CNS neuron development) and regulatory signaling (positive regulation of STAT tyrosine phosphorylation), with additional metabolic processes (sterol import, vitamin D3 metabolism, glycogen regulation). This suggests a cluster of proteins involved in coordinating development and signaling with metabolic regulation, rather than a single, narrow pathway. Hence, a concise label that captures these themes is Developmental signaling and metabolism.","confidence":"Medium","size":21,"edges":190,"triangles":1009,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":21},{"id":"GO:0070640","count":21},{"id":"GO:0042523","count":21},{"id":"GO:2000775","count":21},{"id":"GO:0035376","count":21}]},{"hash":"380594874623162382","title":"Neural sensory perception and dopaminergic signaling","description":"The top GO terms cluster around brain-related functions: sensory perception (pain, vision), visual learning, and dopaminergic synaptic transmission, along with responses to cocaine and morphine and ERK signaling downstream of neural activity. This pattern points to neural signaling and reward pathways as the core theme, with a few terms related to other systems that may reflect secondary associations. Overall, the cluster seems to capture brain-based sensory processing and dopaminergic signaling.","confidence":"High","size":21,"edges":137,"triangles":457,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0048148","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0043278","count":9}]},{"hash":"2093920354315514076","title":"Antiviral Response and RNA Processing","description":"This cluster is enriched for antiviral defense terms (response to virus, interferon-alpha signaling, regulation of viral transcription and genome replication) alongside RNA metabolism activities (translation, tRNA processing, primary miRNA processing), suggesting a functional module that links RNA processing with antiviral responses. A developmental term appears less connected, but the predominant themes support the antiviral-RNA processing connection.","confidence":"High","size":21,"edges":193,"triangles":1037,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0045071","count":7},{"id":"GO:0035455","count":7},{"id":"GO:0090502","count":6},{"id":"GO:0008033","count":6}]},{"hash":"630708048453215439","title":"RNA processing and translational initiation regulation","description":"This cluster is dominated by GO terms about mRNA processing, splicing, polyadenylation, and regulation of translation initiation, plus ribosome biogenesis processes, suggesting a cohesive group of proteins that coordinate RNA maturation and control of protein synthesis, including stress-response mRNA stability.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0006378","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11}]},{"hash":"717076867187659605","title":"Developmental Signaling and Differentiation","description":"The proteins are enriched in key developmental signaling pathways (Wnt, Hippo, ERK) and processes governing cell fate, proliferation, and apoptosis, complemented by epidermal differentiation (keratinocytes) and related tissue development signals; together these terms point to coordinated signaling controlling development and differentiation rather than a single specific function.","confidence":"Medium","size":21,"edges":11,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":13},{"id":"GO:0030216","count":12},{"id":"GO:0006915","count":12},{"id":"GO:0060044","count":12},{"id":"GO:0035329","count":12}]},{"hash":"1737424008470713586","title":"Transcriptional regulation and signaling in development and immunity","description":"The GO terms emphasize both gene expression control (DNA-templated transcription, nuclear export) and a spectrum of signaling pathways (Wnt, Hippo) along with processes affecting cell fate (keratinocyte differentiation, apoptosis, cardiac proliferation) and immune signaling (T cell receptor, GM-CSF). This points to a cohesive theme of transcriptional regulation intertwined with signaling networks governing development, differentiation, and immune responses, hence a mid-level confidence in representing a single cluster.","confidence":"Medium","size":21,"edges":175,"triangles":785,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":14},{"id":"GO:0006351","count":10},{"id":"GO:0006915","count":9},{"id":"GO:0030512","count":9},{"id":"GO:0030216","count":9}]},{"hash":"1142076430992585314","title":"Steroid and Xenobiotic Metabolism","description":"This cluster shows strong signals for metabolism of steroids and lipids (triglyceride, cholesterol, aldosterone biosynthesis, brassinosteroid homeostasis, vitamin D catabolic) alongside xenobiotic degradation (carbazole and dibenzo-p-dioxin catabolic, insecticide metabolism). The overlap suggests a functional group centered on processing both endogenous steroid hormones and exogenous compounds. A few terms like response to cesium ion or female gonad development are less directly connected but do not negate the overall metabolic theme.","confidence":"Medium","size":21,"edges":179,"triangles":866,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":13},{"id":"GO:0046232","count":13},{"id":"GO:0006707","count":13},{"id":"GO:0010268","count":12},{"id":"GO:0019341","count":12}]},{"hash":"1515130259367154414","title":"Sensory Signaling and Temperature Response","description":"The top GO terms cluster around sensory modalities (pain and vision) and temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus), combined with signaling activities such as regulation of membrane potential, ERK signaling, and protein phosphorylation. This suggests a theme of sensory signal transduction linked to temperature/metabolic cues, with downstream phosphorylation signaling as a common mechanism; a few outliers like heart development likely reflect shared signaling pathways rather than core function. Confidence: Medium","confidence":"","size":21,"edges":37,"triangles":5,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0042391","count":10},{"id":"GO:0018298","count":9}]},{"hash":"1157977060228830763","title":"Mitochondrial energy metabolism and dynamics","description":"This cluster is dominated by GO terms tied to mitochondrial function: mitochondrial membrane fission, apoptotic mitochondrial changes, malate-aspartate shuttle, mitochondrial ATP transmembrane transport, and various transmembrane transports (phosphate, heme). Together with responses to fatty acids and amino acid starvation, these terms point to mitochondria-centered energy production, metabolite transport, and apoptosis regulation as a coherent theme.","confidence":"High","size":21,"edges":29,"triangles":2,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":7},{"id":"GO:0097274","count":7},{"id":"GO:0034198","count":6},{"id":"GO:0008637","count":6},{"id":"GO:0015886","count":6}]},{"hash":"552243711869402742","title":"Neural adhesion and synapse assembly","description":"The cluster centers on cell-adhesion molecules (homophilic/heterophilic and calcium-dependent adhesion) and synapse assembly, with strong links to nervous system development and synaptic formation, suggesting proteins involved in neuronal cell-cell interactions and synaptogenesis.","confidence":"High","size":21,"edges":176,"triangles":821,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007399","count":11},{"id":"GO:0007156","count":11},{"id":"GO:0051965","count":10},{"id":"GO:0043931","count":9}]},{"hash":"1340231936908049495","title":"Axon guidance and neuroimmune signaling","description":"Proteins in this cluster show clear neural development signals (semaphorin-plexin signaling for axon guidance, sympathetic neuron projection guidance, paranodal junction assembly) along with immune-related processes (complement activation, T cell proliferation, macrophage activation regulation). This combination suggests involvement in nervous system wiring with potential neuroimmune interactions, justifying a label that reflects both aspects.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905065","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0030913","count":4},{"id":"GO:0000187","count":4},{"id":"GO:0042102","count":4}]},{"hash":"1910723209686564384","title":"Developmental Signaling and Stress Response","description":"This cluster's GO terms converge on signaling and developmental processes (positive regulation of GTPase activity; cellular response to TGF-beta stimulus; multicellular organism development; neural tube closure) and cellular stress responses (ER stress\u2013triggered apoptotic signaling; DNA damage checkpoint signaling) with supporting roles for ubiquitination and broad regulatory processes. While some terms (viral process, histone acetylation) are less specific, the overarching theme is signaling intertwined with development and stress responses.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0043982","count":4},{"id":"GO:0043981","count":4},{"id":"GO:0016032","count":3}]},{"hash":"2294071763956197731","title":"Developmental morphogenesis and tissue remodeling","description":"This cluster shows strong representation of developmental and morphogenesis-related GO terms, including lung branching and tubular morphogenesis, ossification, decidualization, and basement membrane remodeling, plus signaling and proliferation terms (neural precursor proliferation and Wnt signaling). The diversity suggests roles in broad developmental patterning and extracellular remodeling rather than a single pathway, with some immune-related terms likely reflecting remodeling contexts.","confidence":"Medium","size":21,"edges":186,"triangles":935,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:2000179","count":21},{"id":"GO:0051603","count":21},{"id":"GO:0010815","count":21},{"id":"GO:0060441","count":21},{"id":"GO:0001957","count":21}]},{"hash":"2082447656704459575","title":"Calcium signaling in brain and heart","description":"The terms emphasize calcium dynamics, especially release of Ca2+ from the sarcoplasmic reticulum into the cytosol and regulation of atrial cardiac muscle cell action potential, with astrocyte differentiation pointing to neural-glial calcium signaling. Other terms (e.g., corticosterone response, translation) suggest broader stress and protein-synthesis regulation that often accompany signaling cascades, and some are obsolete. Overall, the cluster appears centered on calcium-mediated signaling in neural and cardiac contexts.","confidence":"Medium","size":21,"edges":43,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051412","count":2},{"id":"GO:0014808","count":2},{"id":"GO:0048708","count":2}]},{"hash":"1745214340352554592","title":"Autophagy and organelle turnover","description":"The cluster\u2019s top GO terms center on autophagy-related processes: autophagosome assembly, autophagy in response to ER overload, mitophagy/autophagy of mitochondrion, glycophagy, the Cvt pathway, and nucleophagy, indicating a cohesive theme of selective degradation and turnover of cellular components; a few terms like aerobic respiration may reflect linked metabolic states but do not override the autophagy signal.  ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0061723","count":2},{"id":"GO:0000045","count":2},{"id":"GO:0044805","count":2}]},{"hash":"2277392092811526421","title":"Pain and Temperature Sensory Signaling","description":"This cluster is dominated by GO terms for pain perception, cellular response to temperature stimulus, and thermogenesis, pointing to a core function in sensory and thermoregulatory signaling. Additional enrichments in GPCR signaling, prostaglandin response, and ERK cascade suggest broader neuromodulatory signaling linked to physiological responses, including blood pressure regulation. Some energy-related terms appear (electron transport chain, membrane potential) but likely reflect cellular energy needs during signaling rather than a primary theme.","confidence":"Medium","size":21,"edges":32,"triangles":2,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0010579","count":10},{"id":"GO:0045777","count":10}]},{"hash":"533473594945760795","title":"ECM Remodeling and Immune Coagulation","description":"This cluster combines extracellular matrix\u2013related processes (elastic fiber assembly, collagen fibril organization, cell-matrix adhesion) with signaling at the cell surface and immune/coagulation pathways (complement activation, adaptive immune response, coagulation), indicating proteins that organize the extracellular matrix while coordinating vascular remodeling and immune responses.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0007171","count":10},{"id":"GO:0048251","count":10},{"id":"GO:0007160","count":10},{"id":"GO:0002250","count":9}]},{"hash":"2083047740511955949","title":"Organogenesis and innate immune signaling","description":"The cluster shows multiple organ development processes (cornea, metanephric tubule morphogenesis, lymph vessel morphogenesis) alongside innate immune signaling terms (NOD-like receptor pathway, IL-1\u03b2 production, type 2 immune response). This pattern suggests a theme of developmental programs coupled with inflammatory/immune regulation, rather than a single narrowly defined function. A couple of auxiliary terms (transport, ECM) are less central to the cluster\u2019s core theme.","confidence":"Medium","size":21,"edges":24,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0061303","count":5},{"id":"GO:0050718","count":4},{"id":"GO:0072287","count":3},{"id":"GO:0036303","count":3},{"id":"GO:0072237","count":3}]},{"hash":"1549446961824396743","title":"GPCR Signaling in Inflammation and Vascular Permeability","description":"The top GO terms cluster around G protein-coupled receptor (GPCR) signaling, including GPCR signaling pathways (adenylate cyclase activated, adenosine receptor signaling), and downstream effectors like phospholipase C. Concurrently, terms related to neutrophil chemotaxis and neutrophil-mediated killing, as well as regulation of vascular permeability and IL-1\u03b2 production, point to an integrated GPCR-mediated inflammatory response and control of endothelial barrier function. This suggests a cohesive module where GPCR signaling drives immune cell recruitment and vascular regulation.","confidence":"High","size":21,"edges":99,"triangles":179,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":21},{"id":"GO:1903141","count":21},{"id":"GO:0016056","count":21},{"id":"GO:0007202","count":21},{"id":"GO:0010579","count":21}]},{"hash":"983350629794421583","title":"Cell Polarity and Junctional Dynamics","description":"The top GO terms cluster around establishment and maintenance of epithelial cell polarity, tight junction assembly, cell shape regulation, and adhesion-dependent spreading, with supporting roles for small GTPase signaling and Golgi-to-plasma membrane transport. While a few terms touch on mitosis or mitochondrial fission, the dominant theme is polarity and junctional organization with coordinated trafficking. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0000266","count":5},{"id":"GO:0070830","count":5},{"id":"GO:0007264","count":5},{"id":"GO:1900026","count":4}]},{"hash":"1039938283231395496","title":"Neuropeptide and Dopaminergic Pain Signaling","description":"This cluster\u2019s top GO terms cluster around neuronal signaling and pain modulation, including regulation of sensory perception of pain, neuropeptide signaling, and dopaminergic receptor signaling via the adenylyl cyclase pathway, as well as membrane potential regulation. While a few terms touch on immunity or metabolism (blood coagulation, diet-induced thermogenesis), the dominant theme points to neuronal/neuropeptide control of pain perception and signaling.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051930","count":7},{"id":"GO:0042391","count":7},{"id":"GO:0007191","count":7},{"id":"GO:0007218","count":7},{"id":"GO:0019233","count":7}]},{"hash":"2002174455721238514","title":"Thermal pain signaling via GPCR pathways","description":"This cluster is dominated by GO terms for sensory perception of pain and cellular response to temperature stimulus, with strong enrichment for GPCR signaling including adenylate cyclase activation and opsin signaling. While there are also terms related to energy metabolism (electron transport chain) and blood pressure regulation, the unifying theme appears to be nociceptive/thermosensory signaling mediated by GPCR pathways. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0010579","count":14},{"id":"GO:0045777","count":14}]},{"hash":"131048773064738914","title":"GPCR signaling in enteric and endothelial contexts","description":"The cluster is dominated by G protein-coupled receptor (GPCR) signaling terms, including dopamine, adenosine, and opsin GPCR pathways, as well as downstream effectors like adenylate cyclase. Additional terms point to enteric smooth muscle differentiation, endothelial barrier regulation, and neutrophil chemotaxis, suggesting a coherent GPCR-centered signaling module affecting enteric, vascular, and immune-related processes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":12},{"id":"GO:0008283","count":12},{"id":"GO:0071380","count":12},{"id":"GO:0035645","count":10},{"id":"GO:1903141","count":10}]},{"hash":"648561050260242980","title":"Actin-Driven Protrusions and Endocytic Dynamics","description":"The terms point to actin cytoskeleton remodeling and membrane dynamics: actin filament branching, filopodium and lamellipodium/ruffle assembly, and regulation by GTPases, coupled with endocytosis and phagocytic engulfment. This suggests proteins coordinating adhesion-dependent spreading with actin-driven protrusions and membrane remodeling processes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0090135","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0006897","count":4}]},{"hash":"264041170130581161","title":"Xenobiotic and Hormone Metabolism","description":"The top terms show extensive catabolic processes for xenobiotics (dibenzo-p-dioxin, carbazole, alkaloids, insecticides) alongside hormone biosynthesis/metabolism (brassinosteroids, aldosterone, calcitriol). This points to a cohesive theme of enzymes involved in processing diverse organic molecules, both foreign and endogenous hormones.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010268","count":20},{"id":"GO:0019341","count":20},{"id":"GO:0010164","count":20},{"id":"GO:0017143","count":20},{"id":"GO:0008585","count":20}]},{"hash":"1730286119326937277","title":"Vesicle trafficking and exocytosis","description":"This cluster centers on components of the secretory pathway: exocytosis, exocyst localization, and SNARE regulation, plus related protein transport to vesicles and membranes (peptide hormone secretion, rhabdomere membrane biogenesis). The presence of innate immune and lipopolysaccharide response terms suggests immune signaling linked to secretion processes, while other terms reflect membrane trafficking in specialized cells. Overall, the core theme appears to be vesicle trafficking and exocytic machinery with ancillary immune context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0051901","count":3},{"id":"GO:0045313","count":2}]},{"hash":"654985401308095513","title":"Rho GTPase\u2013driven cytoskeleton remodeling","description":"Most of the top GO terms point to regulation of GTPase activity and specifically Rho signaling, together with actin cytoskeleton dynamics (e.g., barbed-end capping) and related signaling pathways (IL-6, innate immune signaling). This suggests a cohesive theme around cytoskeleton remodeling governed by Rho-family GTPases and associated signaling, with some broader regulatory roles reflected by transcription and development terms.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0050731","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1742153248459427710","title":"Unknown","description":"The proteins in this cluster are tagged with a wide range of GO terms\u2014from apoptosis and cell cycle to neural differentiation, pain/sensory perception, and vitamin D signaling\u2014without a clear shared pathway or function. With no edges or coherent theme linking them, there isn\u2019t a single representative function to name the cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0048709","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0048265","count":4}]},{"hash":"1765141618165063744","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":11},{"id":"GO:0007026","count":10},{"id":"GO:0061158","count":10},{"id":"GO:1902187","count":10}]},{"hash":"1888262590795101165","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, including ubiquitination, autoubiquitination, and ERAD pathways, with links to NF-kappaB signaling and receptor turnover. This suggests a cluster of proteins primarily involved in tagging substrates for degradation and regulating signaling through ubiquitination, rather than broader metabolic roles. Some terms touch chromatin and immune functions, but the central theme remains ubiquitin-mediated proteolysis and regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":9},{"id":"GO:0007250","count":8},{"id":"GO:0033151","count":8}]},{"hash":"99295329981368459","title":"Rho GTPase\u2013driven endocytosis and actin remodeling","description":"This cluster centers on Rho-family GTPase signaling (activation of GTPase activity; regulation of Rho protein signal transduction) driving actin cytoskeleton organization and enabling endocytic processes, including GPCR internalization via clathrin-mediated endocytosis. The combination of endocytosis-related terms and cytoskeletal remodeling points to a cohesive theme of receptor trafficking linked to cytoskeletal dynamics, despite a few peripheral terms in the list. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0035023","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0030036","count":3}]},{"hash":"540025284067829475","title":"DNA Replication and Repair in Immune Cells","description":"This cluster centers on DNA metabolism and genome maintenance, with terms for DNA replication, recombination, transcription initiation, RNA Pol II preinitiation complex assembly, and base-excision repair. It also includes immune-related processes like somatic hypermutation of immunoglobulin genes and spleen development, along with inflammatory response. The co-occurrence of core DNA processing functions with immune-specific diversification points to a cohesive group of proteins involved in DNA metabolism within the immune context, especially B-cell\u2013mediated antibody diversification.","confidence":"High","size":20,"edges":94,"triangles":162,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0048536","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006352","count":3}]},{"hash":"1941661419773190057","title":"Cell wall polysaccharide metabolism","description":"The top GO terms point to cell wall-related processes (cell wall organization, xylan catabolic process, L-arabinose metabolism) and a specific biosynthetic step tied to cell wall glycan assembly (undecaprenyl phosphate\u2013linked biosynthesis). Although some terms appear unrelated (immunoglobulin production, Purkinje cell development, angiogenesis), the strongest signal centers on carbohydrate-based cell wall metabolism and remodeling. Confidence: Medium.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0036108","count":1},{"id":"GO:0075015","count":1},{"id":"GO:0046373","count":1}]},{"hash":"597933326804337572","title":"Plant AGP glycosylation and development","description":"The top GO terms cluster around arabinogalactan protein (AGP) metabolism and related glycosylation (GO:0010405, GO:0030311, GO:0010493, GO:0030311), along with plant-development contexts such as root hair cell development and seed coat mucilage biosynthesis. This points to a core theme of glycoprotein/glycan biosynthesis\u2014especially AGP-related modifications\u2014shaping plant cell surfaces during development. Some outlier terms (insect-related or epithelial polarity) are present but do not override the plant glycosylation/development signal. ","confidence":"High","size":20,"edges":90,"triangles":210,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":8},{"id":"GO:0075015","count":8},{"id":"GO:0018258","count":8},{"id":"GO:0080147","count":8},{"id":"GO:0007299","count":8}]},{"hash":"1447837380952324372","title":"Steroidogenesis and lipid metabolism","description":"This cluster is driven by GO terms for lipid biosynthesis and steroid hormone production, including glucocorticoid biosynthetic process, C21-steroid hormone metabolic process, fatty acid elongation, and sphingolipid biosynthetic processes. Retinal metabolic process and lung development further support a lipid-steroid signaling theme relevant to development and organ maturation. A poly-hydroxybutyrate biosynthetic term appears as an outlier, and an obsolete oxidation\u2013reduction term alongside an antibiotic response term may reflect cross-species annotation noise, but the dominant signal ties to lipid and steroid metabolism. ","confidence":"Medium","size":20,"edges":42,"triangles":21,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":12},{"id":"GO:0046677","count":12},{"id":"GO:0055114","count":12},{"id":"GO:0042574","count":11},{"id":"GO:0030148","count":11}]},{"hash":"113569243446000427","title":"Steroid Hormone and Lipid Biosynthesis","description":"The cluster is strongly enriched for steroid hormone biosynthesis terms (androgen metabolic process, testosterone biosynthetic process, glucocorticoid biosynthetic process) along with lipid metabolism terms (retinal metabolism, sphingolipid biosynthetic process, fatty acid elongation, poly-hydroxybutyrate biosynthetic process). While a few terms are peripheral (lung development, transcription regulation, antibiotic response), the dominant signal points to hormone production and lipid pathways, supporting this label.","confidence":"High","size":20,"edges":56,"triangles":83,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":13},{"id":"GO:0061370","count":13},{"id":"GO:0042574","count":10},{"id":"GO:0030148","count":10},{"id":"GO:0006355","count":10}]},{"hash":"525587715536371219","title":"Innate and adaptive immune signaling","description":"The cluster shows strong representation of immune-related GO terms across both innate (type I interferon signaling, NK cell activity, LPS response, general defense) and adaptive immunity (B cell maturation and BCR signaling), plus signaling regulation (Rho/Ras). This suggests a cohesive immune-defense module coordinating various immune cell functions.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060337","count":10},{"id":"GO:0042267","count":10},{"id":"GO:0002344","count":10},{"id":"GO:0050853","count":9},{"id":"GO:0045087","count":8}]},{"hash":"1978866908821302499","title":"Cell division machinery and ribosome biogenesis","description":"The GO terms show a strong emphasis on cell division and cell cycle, with substantial representation of ribosome biogenesis, translation, and tRNA modification terms. This suggests a cluster of proteins tied to both division processes and ribosome assembly/protein synthesis, potentially reflecting coordination between growth and division. Some terms (e.g., conjugation-related) are less central, but the dominant themes align with division and ribosome biology.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":15},{"id":"GO:0007049","count":11},{"id":"GO:0000747","count":7},{"id":"GO:1903833","count":7},{"id":"GO:0002181","count":7}]},{"hash":"872163630167810801","title":"Unknown","description":"The annotations include cellular response to UV, lipopolysaccharide response, autophagy regulation, DNA repair, apoptotic surface signaling, cholesterol homeostasis, and Fc receptor signaling, indicating a mix of stress response, maintenance, and signaling pathways rather than a single coherent function. Therefore a precise label is not supported.","confidence":"","size":20,"edges":18,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034644","count":1},{"id":"GO:2000435","count":1},{"id":"GO:0042632","count":1},{"id":"GO:2000373","count":1},{"id":"GO:0001300","count":1}]},{"hash":"934228478964588898","title":"Transcriptional regulation and NF-\u03baB signaling in development","description":"This cluster centers on transcriptional regulation (negative regulation of RNA Pol II transcription) and inflammatory signaling (positive regulation of inflammatory response and canonical NF-\u03baB signaling), with developmental contexts such as brain and gonad development and fertilization. The overlap suggests proteins involved in gene-expression control that also participate in NF-\u03baB\u2013related pathways and developmental processes, potentially linked via protein complex formation (heterotetramerization) and cell adhesion remodeling.","confidence":"Medium","size":20,"edges":23,"triangles":4,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0051290","count":8},{"id":"GO:0043163","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0050729","count":6}]},{"hash":"765580401506087618","title":"RNA processing and ribosome biogenesis","description":"Based on the top GO terms, the proteins cluster around RNA metabolism and the machinery of protein synthesis: intronic box C/D snoRNA processing, nuclear-transcribed mRNA catabolic process, RNase MRP-dependent, ribosomal large subunit biogenesis, and translational initiation. The inclusion of chromosome condensation suggests cell-cycle coordination with these processes. A few terms (pollen sperm cell differentiation, ER-associated ubiquitin-related regulation, etc.) seem less aligned and may reflect annotation noise, but the core signal supports RNA processing and ribosome assembly as the cluster\u2019s theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904153","count":2},{"id":"GO:1903061","count":1},{"id":"GO:1903070","count":1},{"id":"GO:1904240","count":1},{"id":"GO:0048235","count":1}]},{"hash":"1843622928925749289","title":"Developmental morphogenesis and organogenesis","description":"The GO terms cluster around developmental signaling (SHH/smoothened), morphogenesis of multiple tissues (atrial septum, lung branching), mesenchymal proliferation, and neural/muscle differentiation, indicating proteins coordinating embryonic organ formation and tissue remodeling across heart, lung, muscle, and nervous system.","confidence":"High","size":20,"edges":20,"triangles":19,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0045880","count":7},{"id":"GO:0071372","count":7},{"id":"GO:0007568","count":6},{"id":"GO:0045987","count":6},{"id":"GO:0009405","count":6}]},{"hash":"1327004232041386226","title":"Nuclear mRNA Surveillance and Decay","description":"This cluster is dominated by nuclear RNA quality-control terms, including nuclear mRNA surveillance, non-stop decay, TRAMP-dependent tRNA surveillance, and nuclear polyadenylation-dependent mRNA decay/catabolic processes, plus related ncRNA surveillance pathways. Together these terms point to a core function in nuclear RNA surveillance and decay mechanisms. A few terms like visual perception and intracellular signal transduction appear less central and may reflect broader annotations, but the prevailing signal is nuclear RNA quality control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0090502","count":1},{"id":"GO:0071028","count":1},{"id":"GO:0071038","count":1}]},{"hash":"543810179855521027","title":"Carbohydrate and Lipid Metabolism","description":"GO terms point mainly to carbohydrate metabolic processes (carbohydrate metabolic process, gluconeogenesis regulation) and lipid biosynthesis (fatty acid biosynthetic process), with a stress-related hint from cellular response to glucose starvation. While there are unrelated terms such as transsulfuration or cell cycle regulation sprinkled in, the dominant theme is metabolism\u2014carbohydrate and fatty acid biosynthesis and energy balance.","confidence":"Medium","size":20,"edges":81,"triangles":172,"max_degree":19,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019343","count":8},{"id":"GO:0031460","count":8},{"id":"GO:0006535","count":8},{"id":"GO:0045722","count":8},{"id":"GO:0006633","count":8}]},{"hash":"2258405363719876763","title":"Developmental transcriptional and chromatin regulation","description":"This cluster centers on regulation of gene expression and chromatin state during development and differentiation, as shown by terms for transcriptional repression by RNA Pol II, chromatin remodeling, and various developmental processes (embryonic genitalia morphogenesis, spermatid differentiation, mesodermal fate specification) along with related signaling and differentiation pathways (TGF-beta response, dendritic cell differentiation, heparin response). The mix suggests a cohesive theme of transcriptional/epigenetic control guiding diverse developmental and differentiation events.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0045819","count":4},{"id":"GO:0042662","count":4},{"id":"GO:0030538","count":4}]},{"hash":"989331794329569133","title":"Plant vacuolar amino acid transporters","description":"The cluster\u2019s terms are centered on amino acid transmembrane transport, including import/export into vacuoles for multiple amino acids (glutamate, arginine, alanine, lysine, histidine, proline, asparagine, glutamine). This, plus a plant-specific term like root cap development, suggests proteins functioning as vacuolar amino acid transporters in plants.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901481","count":4},{"id":"GO:1990818","count":4},{"id":"GO:0015808","count":4},{"id":"GO:1901482","count":4},{"id":"GO:0090513","count":4}]},{"hash":"903177417115779394","title":"Placental vasculature development and signaling","description":"This cluster is driven by placental development signals, notably labyrinthine layer blood vessel development and glycogen cell differentiation in embryonic placenta development, along with regulatory pathways like canonical Wnt signaling and GPCR signaling modulation. Ion transport terms (potassium and sodium) likely support placental physiology, while other terms reflect broader developmental and remodeling processes common in placental tissue. Overall, the strongest coherence is placental vascular development and associated signaling, though the set includes some general or non-placental terms.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060716","count":16},{"id":"GO:0090263","count":15},{"id":"GO:0006813","count":15},{"id":"GO:0060709","count":14},{"id":"GO:0010765","count":14}]},{"hash":"274766001246958997","title":"GPCR-driven cAMP/cGMP signaling with light cues","description":"This cluster is enriched for G protein-coupled receptor signaling (adenosine receptor pathways), activation of adenylyl cyclase and production of cAMP/cGMP (including forskolin response), and related light/hypoxia signaling terms, suggesting a cohesive GPCR-coupled cyclic nucleotide signaling module with downstream transcriptional effects.","confidence":"High","size":20,"edges":27,"triangles":12,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1904322","count":12},{"id":"GO:0006355","count":12},{"id":"GO:0001973","count":12},{"id":"GO:0006182","count":12},{"id":"GO:0071880","count":12}]},{"hash":"2141616295514956359","title":"Broad developmental differentiation programs","description":"The top GO terms point to transcriptional control (RNA Pol II) coordinating multiple lineage differentiation events, including skeletal muscle and myoblast differentiation, heart development (outflow tract morphogenesis, secondary heart field specification), osteoblast differentiation, melanocyte differentiation, and palate formation. This suggests a shared role in embryonic tissue specification rather than a single tissue-specific function, hence a broad developmental differentiation label.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0045669","count":10},{"id":"GO:0035914","count":10},{"id":"GO:0003139","count":9},{"id":"GO:0030318","count":9}]},{"hash":"496514881827886633","title":"Neural development and synapse assembly","description":"This cluster is dominated by GO terms about nervous system development, synapse assembly, and neuron cell\u2013cell adhesion (e.g., nervous system development, synapse assembly, neuron cell\u2013cell adhesion, calcium-dependent adhesion, and positive regulation of synapse assembly). These consistently point to roles in neuronal connectivity and synaptogenesis. A few terms related to skin/hair or other developmental processes appear as outliers, but the strongest signal ties to neural development and synaptic organization.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032773","count":20},{"id":"GO:0007399","count":20},{"id":"GO:0016339","count":20},{"id":"GO:0051965","count":20},{"id":"GO:1903142","count":20}]},{"hash":"2121820915129077031","title":"Ribosome Biogenesis and RNA Pol III Transcription","description":"The dominant GO terms point to ribosome biogenesis and RNA polymerase III\u2013driven transcription (including 5S rRNA transcription and preinitiation complex assembly), suggesting a cluster centered on ribosome production machinery and Pol III transcription. Some terms about cell division may reflect broader growth-related roles, while an obsolete ERAD term is likely annotation noise.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0001009","count":2},{"id":"GO:0000999","count":2}]},{"hash":"114100761611866173","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes and related ubiquitination events (SCF-mediated degradation, autoubiquitination, and specific linkage types), which strongly point to a proteostasis-centric cluster. While there are a few terms related to circadian rhythm and neuronal development, the central theme is ubiquitin-proteasome\u2013mediated protein turnover.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0042752","count":9},{"id":"GO:0031146","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0051865","count":6}]},{"hash":"1669999152193606435","title":"Neuronal GPCR Signaling and Calcium Mobilization","description":"The cluster\u2019s top GO terms cluster around neuropeptide signaling, pain perception, morphine response, and GPCR-driven signaling that triggers intracellular calcium release, pointing to a neuronal GPCR signaling module with calcium dynamics. Some terms related to metabolism and remodeling (electron transport chain, thermogenesis, bone remodeling) appear but are likely secondary or broader contexts linked to GPCR pathways. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":7},{"id":"GO:0045777","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0010579","count":5},{"id":"GO:0051209","count":5}]},{"hash":"1812865352611126175","title":"Rho-regulated actin cytoskeleton remodeling","description":"This cluster is dominated by GO terms tied to actin cytoskeleton organization and Rho GTPase\u2013mediated signaling (e.g., regulation of Rho signaling, positive regulation of GTPase activity, barbed-end capping), pointing to a core theme of actin dynamics governed by Rho-family pathways. A few terms relate to broader cellular processes (Golgi localization, splicing) or specific developmental contexts, but the primary signal centers on actin remodeling regulated by Rho GTPases.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0035023","count":3},{"id":"GO:2000821","count":3},{"id":"GO:0046328","count":3}]},{"hash":"1945038767984567425","title":"GPCR signaling in retina and vascular development","description":"This cluster is dominated by GPCR-related GO terms (G protein-coupled receptor signaling, adenosine receptor signaling, PLC activity) alongside retina development and endothelial/vascular differentiation terms, plus associated cell proliferation. The recurring theme ties GPCR signaling to eye development and vascular growth, suggesting a coherent functional group centered on GPCR pathways influencing retinal and vascular biology.","confidence":"High","size":20,"edges":144,"triangles":561,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":20},{"id":"GO:0008283","count":20},{"id":"GO:0043547","count":20},{"id":"GO:0060041","count":20},{"id":"GO:0035645","count":19}]},{"hash":"402829819662381048","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms are dominated by developmental and organ formation processes (pancreatic cell development, left-right pattern formation, trophoblast and placenta development, cartilage morphogenesis, EMT in heart cushion formation, and endocrine system development), indicating a cohesive program underlying embryogenesis and tissue morphogenesis rather than a single molecular function. Transcription-related terms further suggest regulatory roles guiding these developmental pathways. Overall, the cluster appears to represent embryonic development and organ morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":18},{"id":"GO:0060972","count":18},{"id":"GO:0060707","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0060536","count":18}]},{"hash":"1363244673978957103","title":"Embryonic organogenesis and patterning","description":"This cluster's top GO terms cluster around embryonic development and organ formation\u2014placental/trophoblast differentiation, endocrine organ development (pancreas), left-right patterning, cartilage morphogenesis, and heart-related EMT. The presence of transcriptional regulation terms (DNA-templated transcription and negative regulation of transcription by RNA Pol II) suggests a regulatory program guiding these developmental processes. A single term on complement activation is less representative, but the dominant theme is embryonic development and organogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0035270","count":4}]},{"hash":"1892703226064890196","title":"Apoptosis and heat-stress response cluster","description":"The top GO terms are strongly dominated by apoptotic processes in hepatocytes and myeloid cells, plus a heat-response term, pointing to a cluster enriched for apoptosis and cellular stress responses. Additional terms about polarity, migration, and GTPase regulation suggest broader cytoskeletal and signaling changes, but the clearest theme across the cluster is programmed cell death coupled with stress signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097284","count":8},{"id":"GO:0033028","count":8},{"id":"GO:0090162","count":8},{"id":"GO:0007205","count":7},{"id":"GO:0098907","count":7}]},{"hash":"655081368481285084","title":"Lipid Metabolism and Endocannabinoid Signaling","description":"This cluster is dominated by GO terms for lipid metabolism and lipid-derived signaling, including cholesterol biosynthesis, triglyceride and diacylglycerol catabolic processes, and regulation of endocannabinoid signaling. These repeatedly point to a cohesive theme around lipid synthesis, breakdown, and lipid-mediated signaling, making it the most representative label. Some terms (xenobiotic response, receptor internalization) may reflect broader metabolic roles or annotation noise but do not outweigh the lipid-centric signal.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":6},{"id":"GO:0042493","count":4},{"id":"GO:0042136","count":4},{"id":"GO:0046340","count":4},{"id":"GO:0008285","count":4}]},{"hash":"1617391002299669860","title":"TGF-\u03b2 Mediated Developmental Signaling and Cytoskeleton Regulation","description":"The top GO terms cluster around TGF-\u03b2 signaling (cellular response to transforming growth factor beta stimulus) and development (spinal cord and skin development, single fertilization), plus cytoskeletal and kinase regulation (positive regulation of GTPase activity, barbed-end actin filament capping, positive regulation of serine/threonine/tyrosine phosphorylation). This combination suggests a cohesive theme of signaling-driven developmental morphogenesis with cytoskeletal remodeling, consistent with TGF-\u03b2\u2013mediated pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051016","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0008284","count":3}]},{"hash":"430633971996328121","title":"Centrosome localization and microtubule transport","description":"This cluster is dominated by GO terms about intracellular organization tied to microtubules and centrosomes\u2014centrosome localization, microtubule anchoring at the MTOC, and minus-end-directed organelle transport\u2014with supporting terms for Golgi localization and endocytosis, suggesting a theme of intracellular trafficking and organelle positioning. A few RNA-related terms (oskar mRNA translation regulation, stress granule assembly) are present but do not override the main transport/localization signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007319","count":3},{"id":"GO:1900275","count":3},{"id":"GO:0072393","count":3},{"id":"GO:0051642","count":3},{"id":"GO:0034063","count":3}]},{"hash":"1571901665118217659","title":"Cytokine regulation in innate inflammation","description":"The top GO terms cluster around modulation of cytokine production (IL-8, IL-6), innate immune signaling (LPS pathways), and defense against bacteria, with additional links to nitric oxide synthesis and inflammatory vascular remodeling. This points to a shared function in regulating inflammatory responses and innate immune signaling rather than a single metabolic or developmental process. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045416","count":3},{"id":"GO:0045429","count":3},{"id":"GO:0050830","count":3},{"id":"GO:1904707","count":3},{"id":"GO:0046325","count":3}]},{"hash":"158167904859491185","title":"Vascular ECM Remodeling and Coagulation","description":"The top GO terms are strongly skewed toward vascular biology and extracellular matrix remodeling: endothelial barrier establishment, biomineral tissue development, elastin catabolic process, fibrinolysis regulation, and Factor XII activation, all pointing to vessel integrity, ECM turnover, and coagulation processes. Transcriptional regulation by RNA polymerase II is also represented, suggesting upstream regulatory factors present in the cluster, but the dominant themes align with vascular development, ECM remodeling, and coagulation pathways. Confidence in a cohesive vascular/ECM/coagulation theme is Moderate given a few outlier terms (midbrain development, general transcription regulation).","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030194","count":8},{"id":"GO:0031214","count":8},{"id":"GO:0045944","count":8},{"id":"GO:0030901","count":8}]},{"hash":"1438611831377103243","title":"Embryonic development and morphogenesis","description":"The top GO terms point to differentiation and morphogenesis across multiple embryonic tissues (trophoblast/placenta, pancreas, cartilage, hair follicles, heart cushion formation, left-right patterning) and endocrine system development, indicating a broad embryogenic program rather than a single pathway. A couple of terms reflect general transcription and DNA damage responses that can accompany development. Overall, the cluster seems to represent embryonic tissue differentiation and organ morphogenesis.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":8},{"id":"GO:0003323","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0060806","count":7}]},{"hash":"244064017997419007","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including craniofacial, pancreatic/endocrine, EMT in heart cushions, left-right patterning, placental differentiation, cartilage morphogenesis, angiogenesis, and fertilization. These terms point to a shared theme of organismal development and organ formation rather than other cellular processes. The absence of edges in the current network may reflect stage-specific or context-specific interactions not captured here. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060707","count":5}]},{"hash":"3898581279191625","title":"Bone development and mechanotransduction","description":"The cluster is enriched for skeletal system development and osteoblast differentiation, as well as cellular response to mechanical stimulus and mechanotransduction-related signaling, indicating a bone formation and load-sensing module. While there are terms related to defense response, mitotic processes, and ER stress that appear less connected, the bone-related terms are the strongest signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0071260","count":2}]},{"hash":"893610777027482532","title":"Neurovascular Development and Signaling","description":"Based on GO terms, the proteins cluster around neural development (telencephalon development, optic nerve morphogenesis, corpus callosum development) and vascular growth (angiogenesis), with signaling pathways involving integrin-mediated signaling, Rho GTPase signaling, and STAT phosphorylation. This combination points to coordinated neurovascular development and associated cell signaling, rather than a single isolated process.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0021537","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0070640","count":4}]},{"hash":"2151528472472892751","title":"Neurodevelopment with vesicle trafficking and autophagy","description":"This cluster centers on nervous system development and neural tube closure, complemented by terms for ER-to-Golgi trafficking, membrane remodeling, GTPase regulation, and autophagosome maturation, suggesting a module where neural development is coordinated with cellular trafficking and autophagy pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043473","count":2},{"id":"GO:1903527","count":2}]},{"hash":"1356188171281822614","title":"Golgi Trafficking and Inheritance","description":"The top GO terms cluster around Golgi localization, intracellular protein transport, and Golgi inheritance, suggesting these proteins participate in Golgi apparatus trafficking and maintenance. A few unrelated terms (ventricular development, arginine biosynthesis) appear but do not override the Golgi signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070207","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0051645","count":2},{"id":"GO:0048313","count":2},{"id":"GO:0021592","count":2}]},{"hash":"2035869774809019907","title":"Signaling Regulation and Trafficking Regulators","description":"The top GO terms point to regulation across multiple signaling pathways (insulin receptor, BMP/NFAT signaling, Rac), plus processes tied to trafficking and cell adhesion (endocytic recycling, vascular permeability, focal adhesion). While one term on mRNA capping is an outlier, the shared theme is broad regulation of signaling and vesicular trafficking, suggesting these proteins act as general regulators rather than a single pathway. Confidence in this label is Medium.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0051895","count":2},{"id":"GO:0060396","count":2},{"id":"GO:2001136","count":2}]},{"hash":"2050747895259482399","title":"DNA Repair and Damage Response","description":"The top GO terms are dominated by DNA repair processes (base-excision repair, nucleotide-excision repair including interstrand cross-link repair, UV-damage excision repair) and the intrinsic apoptotic signaling pathway in response to DNA damage, pointing to a cluster of proteins involved in sensing, repairing DNA lesions, and triggering cell fate decisions. Some developmental terms appear among the list, which may reflect broad annotations or pleiotropy, but the strongest, coherent signal is DNA damage repair/response.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0033683","count":20},{"id":"GO:0003323","count":20},{"id":"GO:0060972","count":20},{"id":"GO:0060707","count":20},{"id":"GO:0060806","count":20}]},{"hash":"1102666651175264072","title":"DNA replication and cell cycle with proteostasis","description":"Core signals for cell proliferation and genome maintenance, including DNA replication, mitotic cell cycle, telomere maintenance, and ribosome biogenesis, with proteostasis via ubiquitin-proteasome pathways and microtubule-associated localization; occasional stress-related terms (nitric oxide response, innate immunity) may reflect broader cellular responses.","confidence":"High","size":19,"edges":126,"triangles":459,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0071732","count":3},{"id":"GO:0019509","count":3},{"id":"GO:0019284","count":3},{"id":"GO:0042254","count":3}]},{"hash":"450690167919725448","title":"Muscle Translation Machinery and Mitochondrial Translation","description":"The top GO terms are dominated by various aspects of translation (initiation, elongation, termination, fidelity) and mitochondrial translation, with additional muscle-related terms (skeletal muscle contraction/differentiation). This points to a cohesive theme of translation machinery function, including mitochondrial protein synthesis, in muscle contexts.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0032543","count":5},{"id":"GO:1902802","count":4},{"id":"GO:0003009","count":4},{"id":"GO:0006449","count":4}]},{"hash":"1452639947708985327","title":"Innate Immune Recognition and Signaling","description":"This cluster is dominated by innate immune functions: innate immune response, phagocytosis recognition, and cellular response to fungal-origin molecules, suggesting a role in pathogen detection and immune signaling. The autophosphorylation term points to kinase-driven signaling within these pathways, supporting a cohesive immune signaling theme, while a few noise terms (like light detection) do not override the main signal.","confidence":"High","size":19,"edges":50,"triangles":20,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001502","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0046777","count":4},{"id":"GO:0032516","count":4}]},{"hash":"1230249822467376806","title":"Embryonic Development and Tissue Differentiation","description":"The top GO terms cluster around regulation of differentiation across neural, cardiac, mesodermal, and bone lineages, plus transcriptional regulation and pathway modulation, suggesting proteins that broadly govern tissue development and lineage specification rather than a single pathway. This supports a label focused on development and differentiation across multiple tissues.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":13},{"id":"GO:0060766","count":13},{"id":"GO:0006366","count":13},{"id":"GO:2001038","count":12},{"id":"GO:0048712","count":12}]},{"hash":"1763860604935902946","title":"Translation and central metabolism","description":"The top terms mix protein synthesis (translation and ribosomal assembly) with core metabolism (glycolysis, TCA cycle) and lipid and amino acid biosynthesis, suggesting a cluster that links protein production with energy generation and biosynthetic pathways.","confidence":"Medium","size":19,"edges":156,"triangles":748,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0006099","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0000027","count":3},{"id":"GO:0009228","count":2}]},{"hash":"1101590234306804652","title":"Carbohydrate metabolism and cell wall biosynthesis","description":"The cluster is dominated by GO terms related to polysaccharide production and carbohydrate processing, including lipopolysaccharide biosynthesis, UDP-N-acetylglucosamine biosynthesis, glucose-1-phosphate metabolism, galactose catabolism, glycogen biosynthesis, and cell wall organization. Photosynthesis and gravity detection hint at plant-associated context, but the strongest signal centers on carbohydrate metabolism and cell wall construction, with some cross-kingdom terms. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0015979","count":3},{"id":"GO:0006048","count":3}]},{"hash":"1427042229433803857","title":"RNA processing and translation initiation machinery","description":"This cluster is enriched for splicing regulation (positive and alternative splicing via spliceosome), mRNA export, small-subunit processome assembly, and translation initiation factor complex assembly, indicating a cohesive set of proteins involved in RNA maturation and the initiation of translation. The oskar mRNA localization term also supports a role in mRNA localization processes within development.","confidence":"High","size":19,"edges":72,"triangles":153,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0006406","count":7},{"id":"GO:0000381","count":7},{"id":"GO:0045451","count":6}]},{"hash":"382331346542345939","title":"Developmental and Synaptic Signaling","description":"Based on the Top Terms, this cluster centers on developmental processes and signaling in multiple tissues, with a notable emphasis on neuronal development and synaptic function (brain development, synapse assembly, long-term potentiation). Additional terms point to organ development (uterus, heart, thymus) and signaling pathways (insulin receptor signaling, T cell receptor signaling) as well as cellular responses to nitric oxide. Together these suggest a broad, multi-tissue developmental signaling cluster, rather than a single cohesive pathway. The label reflects the strongest GO themes while acknowledging cross-tissue signals; confidence is moderate due to heterogeneity and lack of direct interaction data.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0007507","count":4}]},{"hash":"448722468142152566","title":"Golgi- and SNARE-mediated vesicle trafficking","description":"The top GO terms cluster around Golgi-associated transport and SNARE-mediated fusion (ER-to-Golgi, intra-Golgi, Golgi-to-vacuole, and ribbon formation) plus SNARE complex assembly, and extend to exocytic insertion of neurotransmitter receptors and synaptic potentiation. This strongly suggests a functional group focused on Golgi-based vesicle trafficking and SNARE-driven vesicle fusion, including synaptic exocytosis. ","confidence":"High","size":19,"edges":136,"triangles":637,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048280","count":18},{"id":"GO:0006888","count":18},{"id":"GO:0090161","count":18},{"id":"GO:0006891","count":18},{"id":"GO:0035493","count":17}]},{"hash":"572506726664353803","title":"Developmental signaling and morphogenesis with immune regulation","description":"The cluster centers on signaling and morphogenesis: several GO terms relate to immune signaling (type I interferon pathway, STAT phosphorylation, IL-10 regulation) while others cover developmental and morphogenetic processes (otolith morphogenesis, multicellular development, branching morphogenesis) and structural assembly (striated muscle myosin thick filament). Vitamin D3 metabolism and ion channel clustering add metabolic and cellular organization context, suggesting a network where signaling integrates development and immune modulation. Overall, a concise label is Developmental signaling and morphogenesis with immune regulation.","confidence":"Medium","size":19,"edges":125,"triangles":464,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060337","count":19},{"id":"GO:0070640","count":19},{"id":"GO:0071688","count":19},{"id":"GO:0032474","count":19},{"id":"GO:0042523","count":19}]},{"hash":"92834354183230456","title":"Dopaminergic Neural Signaling and Sensory Perception","description":"This cluster centers on neural signaling and sensory processing, with strong representation of sensory perception (pain, vision, visual learning), dopaminergic synaptic transmission, and behavioral responses to cocaine, plus signaling events like ERK cascade and protein phosphorylation. While a few terms (prostaglandin response, heart development) appear, the dominant theme is dopamine-related neural activity and sensory processing.","confidence":"High","size":19,"edges":70,"triangles":96,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0007601","count":12},{"id":"GO:0070374","count":11},{"id":"GO:0071380","count":11},{"id":"GO:0007507","count":11}]},{"hash":"792399833249251642","title":"Epidermal Differentiation and Signaling","description":"This cluster is dominated by keratinocyte differentiation and regulation of key signaling pathways, notably positive regulation of canonical Wnt signaling and Hippo signaling, along with apoptosis. The convergence on differentiation and proliferation-control signaling (keratinocyte differentiation, Wnt, Hippo, apoptotic process) suggests proteins tied to epidermal development and growth regulation, with some broader signaling themes (immune signaling and morphogenesis) that may reflect shared pathway components. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030216","count":15},{"id":"GO:0090263","count":15},{"id":"GO:0006915","count":15},{"id":"GO:0060044","count":15},{"id":"GO:0035329","count":15}]},{"hash":"822124350056097486","title":"DNA Damage Response and Cell Cycle Control","description":"Prominent GO terms center on chromosome segregation, G2/M transition, and exit from mitosis, along with nucleotide-excision repair and broader DNA repair regulation, all tied together by ubiquitin-mediated proteolysis (SCF-dependent). The cluster also shows ER-stress\u2013related apoptotic signaling and ISG15 conjugation, suggesting stress and antiviral response cross-talk, but the dominant theme is DDR and cell cycle control through targeted protein turnover and repair pathways.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0007059","count":19},{"id":"GO:0031146","count":19},{"id":"GO:0016032","count":19},{"id":"GO:0000086","count":19},{"id":"GO:0010458","count":19}]},{"hash":"2094030111564028583","title":"Chromatin Silencing and Transcriptional Repression","description":"This cluster is characterized by strong representation of GO terms for negative regulation of transcription by RNA polymerase II, heterochromatin formation, and chromatin localization. Terms like silent mating-type cassette heterochromatin formation and establishment of protein localization to chromatin indicate a core theme of chromatin-based transcriptional control. Some terms (apoptotic process, Rho signaling, astrocyte differentiation) are more peripheral, suggesting additional roles but not central to the cluster. Therefore, this label captures the dominant function of the cluster.","confidence":"Medium","size":19,"edges":163,"triangles":843,"max_degree":18,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0051290","count":10},{"id":"GO:0071169","count":8},{"id":"GO:0030466","count":6},{"id":"GO:0031532","count":6}]},{"hash":"961619821657426379","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0000056","count":10},{"id":"GO:1905053","count":10},{"id":"GO:1902416","count":10},{"id":"GO:0000398","count":10}]},{"hash":"661996682720578640","title":"Mitochondrial Translation and Energy Metabolism","description":"This cluster is driven by terms tied to mitochondria, notably mitochondrial translation and transamidation for Gln-tRNA, along with energy-related processes such as the TCA cycle and fatty acid catabolism. The presence of ER organization suggests broader organelle coordination, but the strongest recurring theme is mitochondrial protein synthesis coupled with metabolic pathways, indicating a mitochondria-centered functional cluster. Some terms are deprecated or broad (e.g., nylon catabolic process, obsolete lysine biosynthesis), which may reflect annotation noise rather than a core alternate function.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":6},{"id":"GO:0007029","count":4},{"id":"GO:0019876","count":4},{"id":"GO:0070681","count":4},{"id":"GO:0009062","count":4}]},{"hash":"1259765671660165880","title":"Ubiquitin-ERAD and Microtubule Trafficking Regulation","description":"This cluster centers on ubiquitin-dependent ERAD (and deubiquitination) alongside microtubule cytoskeleton organization and trafficking-related processes such as spindle pole body duplication, endocytosis, and GPCR internalization, suggesting a shared function in protein quality control and cargo transport on microtubules.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0000226","count":7},{"id":"GO:0030474","count":6},{"id":"GO:1903071","count":6},{"id":"GO:1904378","count":6}]},{"hash":"909906165608033917","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0035435","count":2},{"id":"GO:1990314","count":2},{"id":"GO:0036233","count":2}]},{"hash":"953370365260311526","title":"Developmental transcription regulators","description":"The top GO terms show a strong emphasis on RNA polymerase II\u2013mediated transcription (negative regulation of transcription, DNA-templated transcription, transcription by RNA Pol II) coupled with multiple organ-development processes (heart development, primitive streak formation, brain segmentation, rhombomere 5 development, pituitary gland development, peripheral nervous system neuron development, liver regeneration). This pattern points to proteins that regulate transcription during embryonic and organ development across diverse tissues.","confidence":"High","size":19,"edges":61,"triangles":39,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0006366","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0090009","count":5}]},{"hash":"2172802747046737133","title":"Chromatin-Associated Developmental Regulation","description":"This cluster centers on GO terms related to transcription and chromatin (DNA-templated transcription, chromatin localization, histone methylation) alongside developmental processes (heart development, mesoderm, left/right pattern formation). The combination suggests a theme of chromatin-mediated control of developmental gene expression, particularly in cardiogenic and germ layer patterning contexts. The presence of a potassium transport term adds some heterogeneity, but the core signal points to developmental transcriptional regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051567","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0071168","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1768785627385624170","title":"Neuronal GPCR Signaling and Neuroendocrine Regulation","description":"These proteins co-represent neural signaling and neuroendocrine outputs. GO terms indicate GPCR signaling that activates adenylate cyclase, neuropeptide signaling, and positive regulation of ERK1/2 cascades, along with modulation of membrane potential and sensory processes like pain perception and visual learning. The presence of prolactin secretion and endocrine pancreas development suggests an endocrine aspect. Together, the cluster points to proteins involved in neuronal communication with hormonal regulation, i.e., neuronal GPCR signaling and neuroendocrine control.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0010579","count":6},{"id":"GO:0007218","count":6},{"id":"GO:0010800","count":5},{"id":"GO:0019233","count":5}]},{"hash":"495496812564934265","title":"GPCR-cAMP Signaling in Vascular Regulation","description":"This cluster is dominated by GO terms for G protein-coupled receptor signaling and adenylate cyclase activation (e.g., GPCR signaling, adenosine receptor signaling, and activation of adenylate cyclase), pointing to cAMP-mediated signaling. The links to blood pressure regulation, enteric smooth muscle differentiation, and endothelial barrier dynamics suggest vascular tone and vascular integrity involvement, while enrichment for neutrophil chemotaxis aligns with GPCR-driven immune cell recruitment. The electron transport chain term appears incidental. Overall, the proteins seem tied to GPCR-mediated signaling affecting vascular and immune functions.","confidence":"High","size":19,"edges":12,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0022900","count":19},{"id":"GO:0007190","count":19},{"id":"GO:0035645","count":18}]},{"hash":"2246463474744015320","title":"Immune signaling and Golgi trafficking","description":"The top GO terms mix immune-related responses (lipopolysaccharide response, defense against protozoan, regulation of IL-6 production, glucocorticoid response) with Golgi-centered trafficking processes (Golgi organization, retrograde transport from Golgi to ER, Cvt pathway). Rac and PI3K/AKT signaling hints suggest integrated cytoskeletal and signaling roles that tie immune functions to vesicle transport, pointing to a cluster of proteins coordinating immune signaling with intracellular trafficking.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":3},{"id":"GO:0034115","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0042832","count":2}]},{"hash":"1576815360610944732","title":"Epithelial Polarity and Cell Migration","description":"These proteins cluster around epithelial cell organization and movement. Key terms include establishment of epithelial cell polarity, actin filament bundle assembly, and cell migration, together with cellular responses to mechanical stimulus. This points to coordinated cytoskeletal remodeling and polarized adhesion that drive epithelial tissue morphology and motility. Some terms (cell cycle, cold, pain, vitamin D) are less central, hence a focused label on polarity and motility.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0071260","count":4}]},{"hash":"19896646791089252","title":"GPCR-GTPase Signaling and Endocytosis","description":"This cluster's top GO terms center on GPCR signaling, regulation of GTPase activity (notably Rho), and clathrin-mediated endocytosis, indicating coordinated control of GPCR signal transduction and membrane trafficking. Additional terms related to sensory perception and endothelial tube formation suggest broader roles, but the core theme appears to be GPCR-driven signaling coupled to endocytic regulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035025","count":3},{"id":"GO:0050975","count":3},{"id":"GO:0045494","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0002031","count":3}]},{"hash":"2219153590821774974","title":"Vertebrate Developmental Processes","description":"This cluster is dominated by GO terms related to embryonic and organ development across multiple tissues (nervous system, brain, inner ear, liver, pancreas, gonads, somites). The shared theme appears to be broad vertebrate development and organogenesis rather than a single specific pathway, consistent with a general developmental label. Confidence: Medium","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":6},{"id":"GO:0048839","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0001889","count":5},{"id":"GO:0007399","count":4}]},{"hash":"1913353619710219881","title":"Rho\u2013Actin Cytoskeleton Regulation","description":"The top GO terms cluster around regulation of Rho GTPase signaling and actin cytoskeleton organization, indicating a module focused on cytoskeletal dynamics and signal transduction. The other terms suggest tissue-specific contexts (heart development, endothelial barrier) and neural-related processes (sensory perception of sound, synaptic transmission), which can all involve cytoskeletal remodeling. Overall, the cluster points to Rho/actin\u2013mediated regulation with broader developmental and neural implications.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1512950118691846158","title":"Pain and Temperature GPCR-Calcium Signaling","description":"The cluster is dominated by GO terms for sensory perception of pain and response to temperature, both tied to release of sequestered Ca2+ in the cytosol, and it is enriched for GPCR signaling pathways (opeins, adenosine receptor signaling, PLC activity). This points to a cohesive theme of GPCR-driven calcium signaling mediating nociceptive and thermoregulatory responses, with some broader vascular and enteric differentiation terms accompanying them. Overall, the core signal is GPCR-mediated calcium dynamics in pain/temperature sensing.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0051209","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0035645","count":10}]},{"hash":"2207221341585942594","title":"Embryonic organogenesis","description":"The top GO terms point to developmental and morphogenetic processes across multiple organs (brain, eye, digestive tract, uterus, spleen) and include neural crest migration, indicating broad embryonic development rather than a single pathway. The presence of transcription by RNA polymerase II suggests active gene expression during these developmental events, supporting a label of embryonic organogenesis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060441","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0048048","count":2}]},{"hash":"274882795644204973","title":"Cell signaling and vesicle trafficking","description":"The GO terms cluster around intracellular signaling pathways (phosphatidylinositol signaling, regulation of Ras and Rho pathways) and vesicle-related processes (intracellular transport, synaptic vesicle priming, acrosome reaction, and neutrophil degranulation regulation). This points to a cohesive theme where signaling controls vesicle dynamics and secretion, even though some terms touch development contexts. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048015","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0016082","count":3}]},{"hash":"1544095069636843036","title":"Synaptic plasticity and spine dynamics","description":"These proteins are enriched for GO terms tied to synaptic function and dendritic spine biology, including long-term synaptic depression and positive regulation of glutamatergic transmission, along with actin cytoskeleton regulation (barbed-end capping) and adhesion-related processes that support spine structure and synaptic stability. Taken together, the cluster likely represents components of synaptic plasticity and dendritic spine maintenance, with related regulation of signaling pathways.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060292","count":4},{"id":"GO:0097062","count":4},{"id":"GO:0051968","count":4},{"id":"GO:1900026","count":3},{"id":"GO:1900740","count":3}]},{"hash":"1008063522017213787","title":"Embryonic mesodermal and craniofacial development","description":"The top GO terms point to early embryogenesis and patterning\u2014mesoderm formation, somite/axis specification, left-right patterning, craniofacial (roof of the mouth) development, and placental/trophoblast differentiation\u2014with accompanying processes like integrin activation and cell proliferation regulation that are common in developmental morphogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0048146","count":4},{"id":"GO:0033622","count":4},{"id":"GO:0033623","count":4}]},{"hash":"395135599245575942","title":"Actin cytoskeleton remodeling and immune signaling","description":"This cluster is dominated by GO terms centered on actin cytoskeleton dynamics (Rho/Rac signaling, actin filament branching, microspike assembly) and immune cell functions (neutrophil chemotaxis, adaptive immune response, mast cell proliferation, TGF-beta signaling). The convergence on cytoskeletal remodeling during immune cell activation and migration suggests proteins that coordinate signaling to reorganize actin for movement and immune responses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:2000251","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0002250","count":6},{"id":"GO:0030035","count":6}]},{"hash":"1978075143652349049","title":"Presynaptic vesicle release and actin dynamics regulation","description":"GO terms cluster around regulation of Rho/Rac signaling (actin cytoskeleton control), synaptic vesicle priming and exocytosis, and glutamatergic transmission. This suggests a cohesive role in controlling neurotransmitter release at presynaptic terminals via actin remodeling and vesicle priming, with a minor representation of related immune regulation terms as less central context. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:1900144","count":2},{"id":"GO:2000301","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0016082","count":2}]},{"hash":"126870355804182899","title":"Embryonic Morphogenesis and Transcription Regulation","description":"The top GO terms center on developmental morphogenesis (EMT in heart cushions, cartilage morphogenesis, left/right patterning, placenta/endocrine system development) and transcriptional control (DNA-templated transcription, regulation of transcription). This suggests a set of proteins functioning as regulators of embryonic development and gene expression, rather than a single tissue-specific process.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":19},{"id":"GO:0060536","count":19},{"id":"GO:0003323","count":19},{"id":"GO:0060972","count":19},{"id":"GO:0060707","count":19}]},{"hash":"2156823652953547614","title":"Embryogenesis: organ development and patterning","description":"These proteins are linked to a broad set of developmental processes, including endocrine pancreas development, endocrine system development, mesoderm formation, cartilage morphogenesis, palate development, and left-right patterning, as well as EMT-related involvement in heart formation. The presence of transcriptional regulation terms suggests coordinated gene expression control during embryogenesis. Overall, the cluster reflects general embryonic organogenesis and tissue patterning rather than a single, specific pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060707","count":4}]},{"hash":"1765521015692791938","title":"Embryonic Development and Morphogenesis","description":"The proteins cluster around developmental and organogenesis processes: left-right patterning, cartilage morphogenesis, placental and heart-related differentiation (EMT in endocardial cushion, trophoblast and pancreatic cell development). While some terms relate to general gene expression (splicing, ribosomal export), the dominant theme is embryonic tissue differentiation and morphogenesis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3}]},{"hash":"1577981989637212926","title":"Developmental signaling and tissue morphogenesis","description":"This cluster centers on signaling pathways involved in development and morphogenesis across multiple tissues, with terms spanning Rho signaling, Hedgehog (Smoothened) signaling, ROBO rounds, myoblast fusion, kidney and nervous system development, and even immune signaling and channel organization. The common thread is signaling-driven tissue differentiation and morphogenesis across diverse lineages.","confidence":"Medium","size":18,"edges":71,"triangles":106,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0007520","count":10},{"id":"GO:0035385","count":10},{"id":"GO:0001822","count":10},{"id":"GO:0050852","count":10}]},{"hash":"1331191907874846762","title":"Actin-driven cytokinesis and organelle inheritance","description":"The cluster centers on actin cytoskeleton dynamics (Arp2/3, actin patch assembly), cell division processes (contractile ring assembly, cytokinesis), cell polarity/shape, and organelle inheritance (mitochondrion and vacuole inheritance), suggesting a cohesive theme of actin remodeling coordinating cytokinesis and organelle distribution.","confidence":"High","size":18,"edges":146,"triangles":716,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000001","count":7},{"id":"GO:0071963","count":7},{"id":"GO:0000147","count":7},{"id":"GO:0000011","count":7},{"id":"GO:0090131","count":6}]},{"hash":"1016751528680376978","title":"Splicing and translation initiation regulation","description":"This cluster centers on spliceosome-mediated mRNA splicing and regulation of translation initiation, including small-subunit processome assembly and translation reinitiation, suggesting a cohesive module of RNA processing and translational control.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":12},{"id":"GO:0010610","count":11},{"id":"GO:0048025","count":8},{"id":"GO:0048026","count":7},{"id":"GO:0097010","count":7}]},{"hash":"488732387933210076","title":"Post-transcriptional mRNA processing and translation regulation","description":"The terms cluster around spliceosome-mediated splicing regulation, mRNA stability and poly(A) tail control, small-subunit processome assembly, and initiation/reinitiation of translation (eIF4F assembly, translation initiation regulation). This points to a coherent theme of post-transcriptional gene expression control, from RNA processing to translation.","confidence":"High","size":18,"edges":24,"triangles":2,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":12},{"id":"GO:0010610","count":12},{"id":"GO:0048026","count":11},{"id":"GO:0097010","count":11},{"id":"GO:0034462","count":11}]},{"hash":"2129542693315331933","title":"Post-transcriptional mRNA processing and translation control","description":"The GO terms cluster around mRNA processing steps (splicing regulation, mRNA export, small-subunit processome) and translation control (initiation, reinitiation, translation termination), including stress-responsive(mRNA stability) regulation. This points to a shared function in post-transcriptional gene expression control, spanning processing to translation, especially under stress.","confidence":"High","size":18,"edges":29,"triangles":17,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":8},{"id":"GO:0048026","count":7},{"id":"GO:0097010","count":7},{"id":"GO:0034462","count":7},{"id":"GO:0048025","count":7}]},{"hash":"768355459495318911","title":"Translation Machinery and mRNA Turnover","description":"The term set is dominated by GO terms for translation at all stages (initiation, elongation, termination), ribosome disassembly, and mitochondrial translation, indicating a cluster of proteins involved in protein synthesis. The presence of cytoplasmic translation regulation and mRNA deadenylation-dependent decay reinforces the focus on translation and associated mRNA turnover; a single outlier term about heterochromatin regulation is relatively marginal.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0006415","count":9},{"id":"GO:0046677","count":9},{"id":"GO:0032790","count":8},{"id":"GO:1902802","count":8}]},{"hash":"29071356680105875","title":"Diverse membrane transporter proteins","description":"The GO terms are dominated by transmembrane transport across a wide range of substrates (ions like K+ and Na+, sugars, vitamins, xenobiotics) and even neurotransmitter loading into synaptic vesicles, indicating a cluster of diverse transporter proteins rather than a single pathway.","confidence":"High","size":18,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0006855","count":6},{"id":"GO:0035435","count":6},{"id":"GO:0015757","count":6}]},{"hash":"904116862116646554","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The strongest signals are actin filament polymerization, cytoskeleton reorganization, and Rho signaling, along with adhesion-related processes and cell spreading/migration, pointing to a shared function in actin dynamics and motility. Some terms (palate development, interferon signaling, potassium transport) are less directly related, likely reflecting broader annotations rather than core features of this cluster.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":3},{"id":"GO:2000251","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0030041","count":3}]},{"hash":"929910624373279895","title":"Neural Development and Signaling","description":"Based on the enriched GO terms, the proteins cluster around neuronal development and synaptic signaling (hippocampus development, axon extension, excitatory postsynaptic potential) and growth-related pathways (Wnt signaling, PI3K signaling), with metabolic responsiveness (glucose stimulus). Immune-related term and mitotic cell cycle appear less cohesive with the core neuronal theme, suggesting annotation breadth rather than a primary function. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0045766","count":9},{"id":"GO:0071333","count":9},{"id":"GO:0014068","count":9}]},{"hash":"1642433237516272342","title":"Axon Guidance and Neural Crest Migration","description":"The cluster centers on neural development features: multiple axon guidance terms (semaphorin-plexin signaling, sympathetic neuron projection guidance/extension, branchiomotor neuron axon guidance) and neural crest\u2013associated migration/organization, with supporting cell adhesion signals; proteolysis and complement terms may reflect remodeling processes accompanying these events.","confidence":"High","size":18,"edges":12,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0006508","count":10},{"id":"GO:0007156","count":10},{"id":"GO:1902287","count":10}]},{"hash":"659703468903870718","title":"Vascular development and NO-regulated blood pressure","description":"Top GO terms cluster around cardiovascular development and vasoregulation (heart development, blood vessel diameter maintenance, regulation of blood pressure) and nitric oxide biosynthesis, indicating NO-mediated control of vascular tone. Additional terms like receptor-mediated endocytosis and tubulin complex assembly reflect common cellular processes in endothelial cells. Overall, this cluster likely represents vascular development with NO signaling governing blood pressure.","confidence":"High","size":18,"edges":64,"triangles":109,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007021","count":3},{"id":"GO:0045429","count":3},{"id":"GO:0006898","count":3},{"id":"GO:0070293","count":3}]},{"hash":"815862651040911739","title":"Developmental cell adhesion and morphogenesis","description":"This cluster is dominated by GO terms for cell\u2013cell adhesion (homophilic and heterophilic), together with nervous system development and various morphogenesis processes (lung branching, endocardial cushion migration, bone ossification, hair orientation, mesenchymal proliferation). The common theme is adhesion-mediated organization guiding tissue and organ development, spanning multiple tissues and stages.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":14},{"id":"GO:0007157","count":13},{"id":"GO:0007156","count":13},{"id":"GO:0007399","count":12},{"id":"GO:0043931","count":12}]},{"hash":"1431914773425866640","title":"Neuronal Ion Channels and Synaptic Signaling","description":"This cluster is dominated by GO terms tied to ion transport (potassium and sodium transmembrane), excitatory/inhibitory synaptic signaling (ionotropic glutamate receptor signaling and GABA signaling), and processes that modulate synaptic transmission (receptor internalization, positive regulation of synaptic transmission), along with behavioral phenotypes like locomotion and conditioned taste aversion. The convergence on neuronal excitability and synaptic communication supports a cohesive function in neuronal signaling, despite one outlier term (viral release) that may reflect broader annotation noise. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0035725","count":13},{"id":"GO:0001661","count":12},{"id":"GO:0007214","count":12}]},{"hash":"1791689061436861430","title":"Choline metabolism and phospholipid biosynthesis","description":"The terms strongly center on membrane lipid production: CDP-choline pathway, choline metabolic process, phosphatidylethanolamine biosynthetic process, and ethanolamine metabolic process, pointing to phospholipid/phosphatidylethanolamine synthesis and choline metabolism. Additional terms for L-threonine biosynthesis and methionine salvage suggest supporting amino-acid metabolism within the same metabolic context, while phosphorylation is a broad, common feature. Overall, the cluster appears to be oriented around lipid biosynthesis with related amino-acid metabolism.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0009088","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0019284","count":3},{"id":"GO:0019509","count":3}]},{"hash":"994088919842365824","title":"Embryonic Morphogenesis and Placental Development","description":"This cluster centers on embryonic development processes: left/right patterning, trophoblast giant cell differentiation and placental development, cartilage morphogenesis, EMT in endocardial cushion formation, and craniofacial skeletal formation. The GO terms co-occur around early development and placentation, suggesting these proteins participate in embryogenesis programs and placental differentiation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":7},{"id":"GO:0060972","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060536","count":6}]},{"hash":"709215081386232706","title":"Neural and muscle development and plasticity","description":"The top GO terms point to neural development (axonogenesis, astrocyte differentiation, synaptic plasticity) and muscle differentiation (fiber-type transition, regulation of muscle differentiation), plus signaling (voltage-gated calcium channel activity) and cell-shape changes (EMT, regulation of cell shape). Although a few terms are immune-related, the dominant theme centers on development and plasticity in neural and muscular lineages, with associated signaling and differentiation processes.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":13},{"id":"GO:0048708","count":12},{"id":"GO:0014883","count":12},{"id":"GO:1901387","count":12},{"id":"GO:0008284","count":12}]},{"hash":"1875171030135425064","title":"Developmental organogenesis and signaling","description":"The top GO terms cluster around multicellular development (heart, bone, kidney, olfactory placode) and processes shaping organ formation, with signaling (ERK cascade) and intracellular calcium regulation, plus broader physiological responses (temperature stimulus, thermogenesis, pain perception). This suggests a coherent theme of development supported by signaling and Ca2+ dynamics rather than a single tissue-specific function, hence a broad developmental cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0019233","count":4}]},{"hash":"859900579776336457","title":"Unknown","description":"The GO terms are highly diverse and cover unrelated areas (plant/microbial cellulose metabolism, hormone responses, development in bones and eyes, learning, neurotransmitter biosynthesis, and lipid signaling) with no clear shared function. Edges are zero, suggesting no cohesive cluster function linking these proteins. Therefore no interpretable single-label function can be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":6},{"id":"GO:0051384","count":6},{"id":"GO:0001919","count":5},{"id":"GO:0042136","count":5},{"id":"GO:0007612","count":5}]},{"hash":"260937738669076684","title":"Nuclear transcription, RNA processing, and cell cycle regulation","description":"The top GO terms cluster around nuclear gene expression: mRNA splicing via spliceosome, DNA-templated transcription, and regulation of cyclin-dependent kinase activity and the cell cycle. There are hints of kinase signaling (protein autophosphorylation) but some outliers (smooth muscle development, pain response, obsolete terms) are present; overall the theme centers on transcription/splicing machinery and cell-cycle control.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0032088","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0006351","count":3}]},{"hash":"811933463864159196","title":"Collagen and Proteoglycan ECM Remodeling and Angiogenesis","description":"The proteins are enriched for collagen fibril organization and biosynthesis, proteoglycan catabolic processes, and also show links to VEGF signaling and endothelial morphogenesis. This suggests a cohesive theme of extracellular matrix remodeling in connective tissue and regulation of angiogenesis, with supporting roles for cell\u2013cell adhesion and inflammatory signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":7},{"id":"GO:1900748","count":6},{"id":"GO:0032331","count":6},{"id":"GO:0030167","count":5},{"id":"GO:0032964","count":5}]},{"hash":"1432299424394023956","title":"Inflammation-linked coagulation and vascular regulation","description":"The top GO terms pinpoint immune/inflammatory responses (immune and inflammatory responses, lipopolysaccharide response, neutrophil chemotaxis) alongside coagulation (blood coagulation) and vascular tone control (vasoconstriction, smooth muscle contraction regulation, calcium signaling). Together they depict a coordinated inflammatory vascular/coagulation program, with pain as a downstream inflammation consequence. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0019233","count":9},{"id":"GO:0045745","count":9},{"id":"GO:0045907","count":9}]},{"hash":"277177599171346292","title":"Small GTPase signaling regulators and actin dynamics","description":"The top GO terms cluster around regulation of Ras, Rac, and Rho signaling and actin cytoskeleton remodeling (microspike assembly), pointing to a common function in controlling cytoskeletal dynamics via small GTPases. Ubiquitination appears as a regulatory layer, with a few immune development terms present but not central to the primary theme. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0030035","count":4}]},{"hash":"397158430979745173","title":"Unknown","description":"The top GO terms span microtubule organization, nervous system development, immune tolerance, PDGFR signaling regulation, and histone modification, indicating a very mixed set of functions with no single unifying biological process. The graph shows no edges or interactions, further suggesting the proteins do not form a cohesive, interpretable module. Therefore there is no clear, representative function to name the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001578","count":2},{"id":"GO:0031116","count":2},{"id":"GO:0061188","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0002458","count":2}]},{"hash":"1756706802003448181","title":"Cerebellar granule cell differentiation & signaling","description":"The GO terms include explicit cerebellar granule cell differentiation, plus Rho signaling, cAMP response, microvillus assembly, and other signaling/morphogenesis processes, suggesting a cluster centered on cerebellar neuronal differentiation and related cytoskeletal/signaling dynamics.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0071320","count":6},{"id":"GO:0030033","count":6},{"id":"GO:0050774","count":4},{"id":"GO:0042518","count":4}]},{"hash":"1960692363028378112","title":"Innate NF-kB Activation via Ubiquitination","description":"This cluster centers on innate immune signaling and NF-kB pathway activation, with strong representation of ubiquitin-related regulation (K63-linked ubiquitination, autoubiquitination) and TNF signaling components, including I-kappaB phosphorylation and activation of NF-kappaB-inducing kinase. The converging GO terms suggest a cohesive module governing inflammatory signaling through ubiquitin-mediated control of NF-kB activity.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0007250","count":9},{"id":"GO:0042787","count":9},{"id":"GO:0090073","count":9},{"id":"GO:0051865","count":9}]},{"hash":"1968131128466660466","title":"Neural development, cytoskeletal regulation, and immune signaling","description":"This cluster's GO terms point to neural development through dendrite extension and actin cytoskeleton organization, along with immune signaling pathways (TLR/MyD88, TNF production, NF-kappaB regulation) and xenophagy. The combination suggests a module coordinating neuronal morphology with neuroimmune signaling and autophagic processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032760","count":4},{"id":"GO:0002755","count":3},{"id":"GO:1990416","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0060313","count":3}]},{"hash":"2121191603753466267","title":"Vesicle trafficking and autophagy machinery","description":"Based on the Top Terms, the cluster is enriched for intracellular protein transport, endosome-to-lysosome transport, vacuole fusion, vesicle tethering, and autophagosome maturation, plus eye pigment granule organization\u2014a lysosome-related organelle process. This points to a set of proteins involved in vesicle trafficking and autophagy/lysosome dynamics. Other terms like skeletal muscle differentiation and tRNA methylation are less central to the core theme but may reflect broader cellular roles of some members.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0097352","count":1}]},{"hash":"1428120704383742862","title":"Retroviral integration and proviral latency","description":"The top GO terms collectively describe steps of a retroviral life cycle within a host: entry into the nucleus, reverse transcription (RNA-templated DNA biosynthesis), DNA integration and recombination into the host genome, transcription initiation from the integrated provirus, and establishment of integrated proviral latency. The presence of negative regulation of siRNA processing suggests viral interference with host RNAi defenses, reinforcing the retroviral theme. ","confidence":"High","size":17,"edges":22,"triangles":7,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0039651","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0015074","count":4}]},{"hash":"594967517421010674","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006189","count":5},{"id":"GO:0006223","count":4},{"id":"GO:0006541","count":4},{"id":"GO:0021756","count":3},{"id":"GO:0032264","count":3}]},{"hash":"2091383233387327346","title":"Neural axon guidance and synapse development","description":"The top GO terms cluster around central nervous system development, especially axon guidance (Roundabout pathway, retinal ganglion cell axon guidance, chemorepulsion), corpus callosum development, and CNS projection neuron axonogenesis, with additional signals for synapse assembly and myelination. This combination points to neural connectivity and circuit maturation in the CNS, justifying a label focused on axon guidance and synapse formation.","confidence":"High","size":17,"edges":73,"triangles":92,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035385","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0022038","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0031290","count":4}]},{"hash":"1217715723264779373","title":"Mitotic spindle and kinetochore regulation","description":"This cluster is dominated by GO terms tied to cell cycle control, especially mitosis: localization to the kinetochore, meiotic spindle disassembly, and negative regulation of cyclin-dependent kinase activity. Additional terms point to kinase/phosphatase regulation (JNK, MAPK, dephosphorylation) and broader growth control, suggesting a cohesive theme of spindle/kinetochore dynamics and cell-cycle regulation during division.","confidence":"High","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":17},{"id":"GO:0045736","count":13},{"id":"GO:0043508","count":12},{"id":"GO:0007049","count":12},{"id":"GO:0051895","count":12}]},{"hash":"1052119324545977045","title":"Developmental Growth and mRNA Stability Regulation","description":"The top GO terms point to developmental processes (brain development and embryonic epithelium polarity), alongside cell growth and regulation of mRNA stability, suggesting a cluster of proteins involved in developmental progression and post-transcriptional gene expression control. Redox homeostasis also aligns with general cellular maintenance, though some terms appear obsolete or less coherent with the main theme.","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0090502","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0007568","count":2}]},{"hash":"444877245545065197","title":"Embryonic Development and Kinase Signaling Regulation","description":"The top GO terms emphasize developmental processes across tissues (kidney, bone, brain) and regulatory signaling (negative regulation of protein kinase activity, phosphorylation, and sumoylation), indicating a cluster of proteins coordinating developmental differentiation via modulation of signaling pathways.","confidence":"High","size":17,"edges":81,"triangles":144,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":15},{"id":"GO:0007275","count":13},{"id":"GO:0006469","count":13},{"id":"GO:0043931","count":13},{"id":"GO:0051412","count":12}]},{"hash":"267335905795355144","title":"Splicing regulation and translation initiation","description":"The proteins show strong enrichment for spliceosome/mRNA processing terms (splicing via spliceosome, regulation of mRNA splicing, small-subunit processome assembly, polyadenylation) and for translation initiation regulation, indicating a functional group centered on mRNA maturation and control of translation initiation.","confidence":"High","size":17,"edges":120,"triangles":478,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0048025","count":11},{"id":"GO:0006378","count":11},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":10}]},{"hash":"1266030106544496774","title":"Epigenetic transcriptional regulation in development","description":"The cluster is dominated by gene expression and developmental signals: histone H4-K5 acetylation points to epigenetic regulation; transcription initiation at RNA Pol II promoter implies active gene expression; and developmental terms (multicellular organism development, skeletal system development) suggest roles in organismal patterning. Some stress and immune-related terms (cadmium response, defense against Gram-positive bacteria) appear but do not redefine the core theme. Overall, these proteins likely participate in chromatin-based regulation of transcription during development.","confidence":"Medium","size":17,"edges":13,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043981","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006367","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0007275","count":4}]},{"hash":"2144532650825582484","title":"Embryonic organogenesis and tissue differentiation","description":"This cluster centers on developmental processes across multiple tissues (placenta, pancreas, cartilage, heart) including left-right patterning and EMT in heart formation, plus supporting gene expression regulation (transcription, splicing) and protein turnover. The common theme is embryonic organogenesis and the differentiation of diverse tissues. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4}]},{"hash":"14565179684002790","title":"Eye development and visual perception","description":"The top GO terms point strongly to retina and eye-related processes, including retina vasculature development, photoreceptor differentiation in the camera-type eye, and visual perception. While there are some general terms (e.g., lysosome localization, cell motility regulation), the dominant theme is vision-related development and function, supporting a cohesive eye/visual pathway cluster.","confidence":"High","size":17,"edges":34,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030259","count":2},{"id":"GO:2000145","count":2},{"id":"GO:0043128","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0060219","count":2}]},{"hash":"1548242422423678919","title":"Cross-species development and differentiation","description":"The top GO terms cluster around developmental processes and signaling, including follicle cell development, spermatid and notochord development, stem cell differentiation, and hippo signaling. Some terms depict fungal morphogenesis (conidium, phialide) and others relate to retinoic acid response, with an additional note on host-virus interactions. The overarching theme is broad developmental programs and differentiation pathways across species, justifying a label of cross-species development and differentiation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030713","count":3},{"id":"GO:1902187","count":2},{"id":"GO:0007286","count":2},{"id":"GO:2000736","count":2},{"id":"GO:0035329","count":2}]},{"hash":"1195980272332927246","title":"Neural Development and Neurotransmission","description":"The top GO terms point to neural structure formation (thalamus and adenohypophysis development) and glial growth, along with multiple neurotransmission processes (dopamine uptake, glycine secretion, serotonin secretion, and glycinergic regulation). The presence of amino acid transport terms (leucine and proline transport) supports neuron-related transport, together suggesting a cluster of proteins involved in neural development and synaptic signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":5},{"id":"GO:0051583","count":4},{"id":"GO:0061537","count":4},{"id":"GO:1903346","count":4},{"id":"GO:0015820","count":4}]},{"hash":"1302554287601974341","title":"Inflammation-Driven Angiogenesis","description":"Based on the enriched GO terms, this cluster centers on immune activation (cellular response to fungal origin, response to LPS, adaptive immune response, type I interferon signaling, lectin pathway complement activation) together with vascular remodeling (angiogenesis, endothelial cell migration) and signaling/ECM interactions (ERK cascade regulation, collagen-activated receptor signaling, cartilage condensation). The co-occurrence of immune and angiogenic processes suggests a coordinated inflammatory program that promotes new blood vessel formation. ","confidence":"High","size":17,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071226","count":11},{"id":"GO:0001502","count":10},{"id":"GO:0001525","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0002250","count":8}]},{"hash":"1345958676503911121","title":"Development, morphogenesis, and neural plasticity","description":"The top GO terms include neural functions like long-term synaptic potentiation/depression and social behavior, alongside broad developmental and morphogenesis-related terms (anterior/posterior patterning, heart and uterus development, single fertilization, osteoclast fusion, cell wall organization). This suggests a cluster tied to developmental regulation and tissue morphogenesis, with neural plasticity components, rather than a single, narrow function. ","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1900273","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0009952","count":2}]},{"hash":"798886229050825954","title":"Thermal and Pain Sensory Response","description":"Dominated by GO terms for sensory perception of pain and cellular/physiological responses to temperature, including diet-induced thermogenesis and temperature stimulus, suggesting a thermal/pain sensing theme. Some developmental terms (retina development, enteric smooth muscle differentiation) are present but likely secondary to this core sensory/thermal signaling.","confidence":"Medium","size":17,"edges":62,"triangles":73,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0018298","count":14},{"id":"GO:0042391","count":14}]},{"hash":"600582602438965300","title":"Neural and cardiac development","description":"The top GO terms point to nervous system development and differentiation (including astrocyte, GABAergic neuron, and auditory receptor fate) as well as cardiac/mesodermal differentiation, all under primary transcription control. This suggests a cluster of proteins involved in early embryonic tissue specification affecting neural and heart lineages, with gene expression regulation as a common thread.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:2001038","count":15},{"id":"GO:0048712","count":15},{"id":"GO:0097531","count":13},{"id":"GO:0021858","count":13}]},{"hash":"958542741918763288","title":"TGF-\u03b2/SMAD signaling in development","description":"Top terms point to TGF-\u03b2 receptor signaling and SMAD complex activity, gastrulation, ventral identity determination, and morphogenesis processes (including wing and lung development), along with transcriptional regulation. This pattern suggests a cohesive developmental signaling module driven by SMAD/TGF-\u03b2 pathways, integrating transcriptional control and guidance events. ","confidence":"High","size":17,"edges":81,"triangles":173,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001702","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0007183","count":8},{"id":"GO:0007179","count":8},{"id":"GO:2000791","count":7}]},{"hash":"1004895990038818536","title":"Unknown","description":"The top GO terms span immune defense (phagocytosis recognition, defense against bacteria, immunoglobulin production), neuronal signaling (transmission of nerve impulse, sensory perception of sound), and development-related processes (paranodal junction assembly, cytoskeleton polarity in gastrulation), plus metabolic and behavioral terms (peptidoglycan catabolic process, conditioned taste aversion). Because these functions are heterogeneous with no single unifying process evident, the cluster cannot be cleanly assigned to a specific biological theme.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":5},{"id":"GO:0042742","count":5},{"id":"GO:0030913","count":5},{"id":"GO:0002377","count":4},{"id":"GO:0019226","count":4}]},{"hash":"1528039354131004047","title":"Neural signaling and locomotion","description":"The Top Terms show strong enrichment for neural communication and movement-related processes: conditioned taste aversion, GABA signaling, locomotory behavior, GPCR signaling pathways, and synaptic vesicle regulation. These collectively point to a cluster centered on neural signaling and control of movement, with a few outlier terms (electron transport chain, peptidoglycan catabolic process) likely reflecting unrelated proteins in the mix. Confidence is high that this label captures the main function of the cluster.","confidence":"High","size":17,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":12},{"id":"GO:0007214","count":12},{"id":"GO:0007626","count":12},{"id":"GO:0051482","count":11},{"id":"GO:0031631","count":11}]},{"hash":"1199264138961175966","title":"Organelle protein import (mitochondria and chloroplasts)","description":"The strongest signals are GO:0030150 (protein import into mitochondrial matrix) and GO:0045039 (protein insertion into mitochondrial inner membrane), plus GO:0045037 (protein import into chloroplast stroma), indicating a shared function in translocating and integrating proteins into these organelles. Other terms appear noise or peripheral stress responses, but the central theme is organellar protein import. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:0045039","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0060079","count":2}]},{"hash":"1012549465489366902","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0051402","count":3},{"id":"GO:0070059","count":2},{"id":"GO:0072432","count":2}]},{"hash":"678310962196738006","title":"Vertebrate Developmental Regulation","description":"Based on the GO terms, the proteins cluster around developmental programs across multiple vertebrate tissues (retina, bone, habenula, pituitary, palate, ureteric bud morphogenesis) and involve transcriptional regulation, suggesting a cohesive theme of developmental regulation rather than a tissue-specific process. A lipid metabolism term is present but does not define the cluster\u2019s core function. ","confidence":"High","size":17,"edges":133,"triangles":638,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":10},{"id":"GO:0002076","count":8},{"id":"GO:0002087","count":8},{"id":"GO:0021986","count":7},{"id":"GO:0006351","count":6}]},{"hash":"2222578709470034836","title":"GPCR-Driven Inflammation and Vascular Permeability","description":"Top GO terms cluster around GPCR signaling (G protein-coupled receptor pathways, adenosine receptor signaling, opsin signaling) and downstream effectors, along with neutrophil chemotaxis and regulation of vascular permeability and IL-1\u03b2 production. This suggests a function theme of GPCR-mediated inflammatory signaling that modulates endothelial barrier function and neutrophil responses, with possible tissue context suggested by enteric smooth muscle differentiation.","confidence":"High","size":17,"edges":46,"triangles":23,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":17},{"id":"GO:1903141","count":17},{"id":"GO:0016056","count":17},{"id":"GO:0007202","count":17},{"id":"GO:0010579","count":17}]},{"hash":"719699483944524287","title":"GPCR Signaling in Cardiometabolic Regulation","description":"This cluster shows strong enrichment for G protein-coupled receptor signaling that activates adenylate cyclase, along with processes affecting blood pressure, thermogenesis/metabolism, membrane potential, and temperature response, plus endothelial/smooth muscle and mitochondrial energy-related terms. The mix suggests coordination of cardiometabolic and vascular functions via GPCR pathways, possibly in response to thermal or dietary cues.","confidence":"Medium","size":17,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0002024","count":8}]},{"hash":"1501134688180051438","title":"Neural and sensory organ development","description":"The GO terms cluster around nervous system and sensory-structure formation, including retinal ganglion cell axon guidance, neural crest migration, inner ear morphogenesis/development, forebrain development, and broader nervous system development. While some terms touch on other organs, the strongest and most coherent signal is development of neural and sensory tissues, justifying this label.","confidence":"High","size":17,"edges":13,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031290","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0042472","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1923943221453713704","title":"Neuronal signaling and muscle function","description":"This cluster's top GO terms cluster around nervous system activity (transmission of nerve impulse; regulation of short- and long-term neuronal synaptic plasticity; myelination) and muscle machinery (muscle contraction; sarcomere organization). The mix suggests proteins involved in neuromuscular signaling and the interaction between neural signaling and muscle function, with some broader regulatory terms (transcription regulation, protein export) as general context. ","confidence":"High","size":17,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0019226","count":2},{"id":"GO:0060179","count":2},{"id":"GO:0006936","count":2},{"id":"GO:0045214","count":2}]},{"hash":"76552873090557316","title":"Mitochondrial dynamics and calcium signaling","description":"The top GO terms center on mitochondrial membrane potential regulation and mitochondrial fission, with an additional term for regulation of calcium release from the sarcoplasmic reticulum, suggesting a shared function in mitochondrial dynamics and calcium homeostasis. Several other terms appear more peripheral (metabolic and transport processes), but the dominant mitochondrial/calcic signaling theme supports this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":2},{"id":"GO:0090149","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0010880","count":1},{"id":"GO:1902000","count":1}]},{"hash":"266782484396772750","title":"Unknown","description":"The top GO terms cover a mix of plant-specific processes (chlorophyll catabolic, biotin biosynthesis) and animal/developmental processes (uterus development, vasculogenesis, digestive tract development) plus general processes (oxidant detoxification, cytoplasmic translation, epoxygenase P450 pathway). There is no coherent shared function or pathway linking these terms, and the absence of edges suggests fragmented connectivity, so a specific functional label isn\u2019t justifiable.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0015996","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0009102","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0001570","count":4}]},{"hash":"391736163130459942","title":"Coagulation and fibrinolysis regulation","description":"These proteins are enriched for terms tied to the coagulation/fibrinolysis axis, including positive regulation of blood coagulation, plasminogen activation, and positive regulation of fibrinolysis, suggesting a core role in clot formation and breakdown. Additional terms such as Wnt signaling, biomineral tissue development, digestion, and LPS response may reflect broader vascular development and immune connections, but the coagulation/fibrinolysis theme appears dominant. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0031214","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0007586","count":4},{"id":"GO:0016055","count":4}]},{"hash":"1165297950100522330","title":"Mechanotransduction and immune signaling","description":"The top terms point to cellular responses to mechanical stimuli, actin-driven lamellipodium assembly, and the production of chemokines, alongside regulatory effects on NF-kappaB and antiviral defense. Together with negative regulation of angiogenesis and axonogenesis, this suggests a theme where mechanical cues drive cytoskeletal remodeling coordinated with inflammatory/immune signaling. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0043552","count":3},{"id":"GO:0030032","count":3}]},{"hash":"1622922943786532275","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around embryonic morphogenesis across multiple organs (heart, skeletal, craniofacial, eye, limb) and early development, with one transcription regulation term adding context. This suggests the proteins function in developmental processes rather than a single pathway.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":10},{"id":"GO:0003148","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0007519","count":8},{"id":"GO:0048701","count":8}]},{"hash":"985897167734165890","title":"ECM remodeling and biomineralization","description":"This cluster is enriched for collagen catabolic process, extracellular matrix disassembly, and biomineral tissue development (including amelogenesis), pointing to roles in matrix turnover and formation of mineralized tissues. Some terms like receptor-mediated endocytosis and LPS response are present but appear peripheral to the main ECM/mineralization theme, so the dominant function is ECM remodeling and biomineralization.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":4},{"id":"GO:0097186","count":4},{"id":"GO:0044130","count":4},{"id":"GO:0022617","count":4},{"id":"GO:0031214","count":3}]},{"hash":"630110444319741213","title":"Ubiquitin-Dependent Regulation of Circadian and Muscle Development","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes and ubiquitination (including K33-linked ubiquitination) with several notes on regulation of ubiquitination, alongside circadian rhythm regulation and muscle-associated processes (skeletal muscle differentiation, sarcomere organization). This suggests a coherent module where ubiquitin signaling modulates circadian control and muscle development, despite some broader terms that may reflect pleiotropy. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0042752","count":11},{"id":"GO:0051260","count":8},{"id":"GO:0007399","count":7},{"id":"GO:1990390","count":7}]},{"hash":"2240961562953841716","title":"Cytoskeletal remodeling and synaptic plasticity signaling","description":"This cluster centers on cytoskeletal dynamics that drive axon extension and stress fiber assembly, with regulatory signaling through PI3K/AKT and integrin pathways. The dominant GO terms include regulation of synapse structural plasticity, axon extension, stress fiber assembly, and intracellular transport, pointing to a module coordinating cytoskeletal remodeling with synaptic/adherent signaling. A few terms (platelet aggregation, sorocarp stalk morphogenesis) are less directly linked but reflect broad cytoskeletal regulation across cell types.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0051823","count":3},{"id":"GO:0051534","count":3},{"id":"GO:0007016","count":3},{"id":"GO:0070527","count":3},{"id":"GO:0006886","count":3}]},{"hash":"1267766466192881111","title":"Cell signaling and polarity regulation","description":"This cluster features GO terms tied to GPCR signaling, intracellular signal transduction, ephrin signaling, and nociception, alongside processes like epithelial cell polarity and dendrite development, plus regulation of telomere maintenance and inflammatory mediator production. The common thread is general signaling and regulatory control of cellular architecture and development rather than a single pathway, so \u201cCell signaling and polarity regulation\u201d is a concise, representative label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0050966","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0090162","count":3}]},{"hash":"507318076072954183","title":"Mesenchymal tissue development","description":"The top GO terms cluster around developmental and morphogenetic processes in mesenchymal derivatives, including skeletal muscle fiber development, cartilage condensation, and skin development, suggesting a shared theme of tissue differentiation and formation. While other terms touch broader cellular processes (ubiquitin-dependent catabolism, oligomerization) these are more ancillary to the core mesenchymal development signal.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0071230","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1132086528795096099","title":"Glycosaminoglycan biosynthesis and sugar metabolism","description":"This cluster is enriched for glycosaminoglycan biosynthesis terms (heparan sulfate and chondroitin sulfate) alongside several carbohydrate metabolism processes (gluconeogenesis, fructose metabolism) and dephosphorylation, suggesting a shared theme around extracellular matrix proteoglycan assembly and cellular sugar metabolism. The presence of a few outlier terms (DNA repair, labyrinthine vessel development) likely reflects annotation noise rather than a core function.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":4},{"id":"GO:0015012","count":3},{"id":"GO:0045820","count":3},{"id":"GO:0006094","count":3},{"id":"GO:0016311","count":3}]},{"hash":"1541219741326330485","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":106,"triangles":391,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":13},{"id":"GO:0030205","count":13},{"id":"GO:0045600","count":13},{"id":"GO:0006044","count":13},{"id":"GO:0002002","count":13}]},{"hash":"290244623189126980","title":"Steroid hormone metabolism and xenobiotic detoxification","description":"The cluster shows strong representation of steroid-related processes (androgen metabolic, testosterone/aldosterone biosynthesis, female gonad development) alongside diverse xenobiotic and environmental compound metabolism (carbazole, dioxin, insecticide, vitamin D catabolic, metal response). This suggests a cohesive theme around steroid hormone metabolism coupled with detoxification/metabolic processing of xenobiotics.","confidence":"High","size":16,"edges":37,"triangles":34,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":7},{"id":"GO:0061370","count":7},{"id":"GO:0010268","count":6},{"id":"GO:0019341","count":6},{"id":"GO:0010164","count":6}]},{"hash":"389787452722096742","title":"Neural and visual system development","description":"The cluster is enriched for neural and visual-development related terms: neurogenesis, optic nerve morphogenesis, corpus callosum development, and compound eye photoreceptor differentiation, suggesting a shared role in shaping neural and visual structures. Additional terms like clustering of voltage-gated potassium channels and regulation of Rho signaling fit neuronal development and cytoskeletal remodeling, while apoptotic processes and apoptotic cell clearance can occur during developmental sculpting. The presence of an outlier term (vagina development) is likely a non-specific developmental annotation, but the dominant theme remains neural/visual morphogenesis.","confidence":"Medium","size":16,"edges":112,"triangles":476,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0022008","count":9},{"id":"GO:0060068","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0071688","count":8},{"id":"GO:0043277","count":8}]},{"hash":"2303903027627820817","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":29,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":7},{"id":"GO:0006015","count":6},{"id":"GO:0006068","count":6},{"id":"GO:0030205","count":6},{"id":"GO:0045600","count":6}]},{"hash":"2080884755193048822","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000462","count":5},{"id":"GO:0031118","count":3},{"id":"GO:0031120","count":3},{"id":"GO:0031564","count":3}]},{"hash":"864716113737536967","title":"Steroid and lipid biosynthesis","description":"The top GO terms point to biosynthesis of steroids (glucocorticoid biosynthesis, C21-steroid hormone metabolic process) and various lipid pathways (fatty acid elongation, sphingolipid biosynthesis, retinal lipid metabolism), with some additional, less central terms like transcription regulation and lung development. The strongest cohesive signal lies in steroid and lipid production pathways, suggesting the cluster represents lipid/steroid biosynthesis rather than a single non-lipid function. Confidence: Medium","confidence":"","size":16,"edges":45,"triangles":53,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0042574","count":6},{"id":"GO:0030148","count":6},{"id":"GO:0006355","count":6}]},{"hash":"857456734238783914","title":"Rho/Rac Signaling in Neural and Ocular Development","description":"The cluster centers on regulation of Rho family GTPase signaling (Rho/Rac), with additional ties to neural and eye development (sympathetic nervous system development, camera-type eye morphogenesis) and related processes like cell adhesion and cyclic signaling. This suggests a cohesive theme of Rho/Rac-mediated control of cytoskeletal dynamics and tissue morphogenesis in neural and ocular contexts. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0035021","count":3},{"id":"GO:0048745","count":3},{"id":"GO:0045762","count":3},{"id":"GO:0001953","count":3}]},{"hash":"1484760583091901209","title":"Unknown","description":"The proteins are tied to a broad and diverse set of GO terms, including cell division and mitosis, regulation of gene expression, xenobiotic response, complement activation, metabolism and lipid homeostasis, brown fat differentiation, GTPase signaling, and even visual perception. This mix lacks a single, coherent functional theme, making it difficult to assign a meaningful, specific cluster label with confidence.","confidence":"","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0045721","count":2},{"id":"GO:0010628","count":2},{"id":"GO:0042493","count":2}]},{"hash":"417214526695593990","title":"Neuronal actin dynamics and signaling","description":"The cluster heavily features processes related to actin cytoskeleton remodeling (filopodium assembly and its regulation, substrate adhesion-dependent spreading) and small GTPase signaling, together with neuronal context terms like synaptic transmission (GABAergic) and sensory perception, suggesting a cohesive theme of actin-driven morphology and signaling in neurons; some mitochondrial fission also aligns with neuronal cell dynamics.","confidence":"Medium","size":16,"edges":24,"triangles":0,"max_degree":7,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":9},{"id":"GO:0046847","count":9},{"id":"GO:0007264","count":9},{"id":"GO:0007205","count":8},{"id":"GO:0007605","count":8}]},{"hash":"910110945200030506","title":"Telomere maintenance and genome integrity","description":"The top GO terms cluster around telomere biology (telomere capping; establishment of protein localization to telomere) and core genome maintenance activities (DNA replication, DNA repair, DNA recombination). This suggests a function group focused on preserving chromosome ends and genome stability. Some mitochondrial tRNA aminoacylation terms may reflect dual roles or multifunctional proteins within the cluster, but the dominant theme is telomere-associated genome maintenance.","confidence":"High","size":16,"edges":19,"triangles":3,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072581","count":3},{"id":"GO:0070146","count":3},{"id":"GO:0016233","count":3},{"id":"GO:0070145","count":3},{"id":"GO:0006281","count":3}]},{"hash":"1957802283011834129","title":"Neural development and actin cytoskeleton remodeling","description":"This cluster is dominated by terms tied to nervous system development, cytoskeletal dynamics, and cell adhesion/motility (e.g., actin stress fiber assembly, cellular response to mechanical stimulus, substrate adhesion-dependent spreading). The inclusion of Golgi to plasma membrane transport suggests trafficking needed for these processes, and the developmental terms span lung morphogenesis and gland formation, indicating a broader developmental program with cytoskeletal and adhesion remodeling. Together these themes point to a cohesive role in nervous system and tissue morphogenesis with dynamic actin cytoskeleton regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0006893","count":9},{"id":"GO:1900026","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0051496","count":8}]},{"hash":"1491365983992706220","title":"Growth Factor Signaling and Development","description":"This cluster centers on cellular responses to growth factors (FGF, TGF-beta) and downstream ERK signaling, with associated developmental processes (brain and lymph node development). While there are also immune cell chemotaxis terms and some RNA processing terms present, the dominant theme appears to be growth factor\u2013driven signaling linked to development and cell behavior.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044344","count":5},{"id":"GO:0006378","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0048535","count":4},{"id":"GO:0070371","count":4}]},{"hash":"1163700705156313368","title":"Synaptic development and neurotransmission","description":"This cluster is strongly linked to neural and synaptic functions: multiple top GO terms point to synapse organization/localization, dendrite development, and glutamate secretion, which together imply roles in synapse formation and neurotransmitter release. Vocalization behavior further supports involvement in neural circuits governing behavior, with additional terms touching on neuronal structure and myelin-related localization. Overall, the proteins are best characterized as related to synaptic development and neurotransmission, with some broader neuronal architecture connections.","confidence":"High","size":16,"edges":98,"triangles":324,"max_degree":15,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:0071625","count":12},{"id":"GO:0035023","count":11},{"id":"GO:0035418","count":11},{"id":"GO:0090557","count":11},{"id":"GO:0050808","count":11}]},{"hash":"744422965522726941","title":"Developmental and Immune Signaling","description":"The cluster centers on signaling pathways (insulin receptor and integrin signaling) coupled with developmental cues (heart development, cell migration) and immune activity (B cell maturation, IL-4/IL-7 responses) along with apoptosis. This suggests proteins coordinating development with immune signaling and cell fate, rather than a single narrow function.","confidence":"Medium","size":16,"edges":63,"triangles":135,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0007229","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1177311295733980571","title":"RNA processing and translation initiation machinery","description":"Top terms show mRNA splicing, stability, and processing, plus translation initiation and small-subunit processome assembly, indicating a cluster of proteins involved in post-transcriptional regulation and the initiation/assembly of translation machinery. Therefore name reflects both RNA processing and translation initiation functions.","confidence":"High","size":16,"edges":112,"triangles":457,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:1901407","count":12},{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0006378","count":10}]},{"hash":"23600774235651731","title":"Mitochondrial Respiration and ATP Synthesis","description":"The cluster is dominated by GO terms tied to mitochondrial energy production: proton transmembrane transport, assembly of the respiratory chain complex IV, aerobic respiration, and the electron transport chain from ubiquinol to cytochrome c, all pointing to oxidative phosphorylation and ATP generation. While a few terms pertain to unrelated processes (axon guidance, morphogenesis, Toll signaling), the prevailing signal is mitochondrial respiration, suggesting the proteins function together in energy metabolism.","confidence":"High","size":16,"edges":73,"triangles":187,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":6},{"id":"GO:0033617","count":5},{"id":"GO:0009060","count":3},{"id":"GO:0006122","count":3},{"id":"GO:0042774","count":3}]},{"hash":"60795057527670677","title":"Nervous system and neuroendocrine differentiation","description":"The terms are dominated by nervous system development and neuron/glial differentiation (GABAergic neuron differentiation, astrocyte differentiation, auditory receptor cell fate), plus adrenal chromaffin cell differentiation, indicating a cohesive theme of neural and neuroendocrine differentiation during development. Other terms touch on mesodermal and cardiac formation, but the strongest signal centers on neural lineage specification, making this a representative label for the cluster.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":16},{"id":"GO:0060766","count":16},{"id":"GO:0097531","count":15},{"id":"GO:0021858","count":15},{"id":"GO:0007399","count":15}]},{"hash":"851665428534455838","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001578","count":2},{"id":"GO:0031116","count":2},{"id":"GO:0045572","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0035214","count":1}]},{"hash":"1960829467200159942","title":"Hair and neural development with synapse assembly","description":"This cluster is enriched for GO terms related to hair development and pigmentation (establishment of body hair planar orientation, regulation of hair cycle, melanin biosynthetic process) as well as nervous system development and synaptic assembly (nervous system development, positive regulation of synapse assembly, neuroligin clustering). The co-occurrence of integumentary and neural differentiation signals suggests a developmental program coordinating hair/skin features with neural connectivity, supporting this label.","confidence":"High","size":16,"edges":4,"triangles":0,"max_degree":2,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0048105","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0032773","count":12},{"id":"GO:0060488","count":12}]},{"hash":"1506668916895327790","title":"Neuronal Ion Channel Signaling","description":"The GO terms cluster around ion transport (potassium, sodium, calcium), GABA signaling, and excitatory postsynaptic potentials, with accompanying behavioral terms like startle response, locomotory behavior, and sensory perception. This points to neuronal excitability and synaptic transmission as the core function, making \"Neuronal Ion Channel Signaling\" a concise, representative label.","confidence":"High","size":16,"edges":86,"triangles":215,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":15},{"id":"GO:0007626","count":15},{"id":"GO:0001661","count":14},{"id":"GO:0007214","count":14},{"id":"GO:0060079","count":14}]},{"hash":"1938529195698761602","title":"Innate immune activation and inflammation","description":"The cluster is dominated by immune-related terms: NK cell chemotaxis regulation, phagocytosis recognition, basophil activation, lectin pathway complement activation, and cellular responses to fungal origin, plus positive regulation of arachidonate secretion, all pointing to innate immune signaling and inflammatory processes. A couple of developmental terms (kidney morphogenesis, cartilage condensation) are present but appear ancillary or noisy relative to the immune/inflammation signal. ","confidence":"Medium","size":16,"edges":25,"triangles":5,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0090238","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0001502","count":2}]},{"hash":"1124341016717987945","title":"Neural development and pigment/hair morphogenesis","description":"These proteins cluster around developmental programs that link nervous system development and neural components (e.g., neuroligin clustering) with skin/appendage-related processes such as melanin biosynthesis, hair planar orientation, and vascular maturation. The shared theme appears to be coordinated morphogenesis across neural and integumentary tissues, possibly reflecting neural crest\u2013derived lineages or signaling hubs that govern tissue patterning. Confidence in this connection: Medium.","confidence":"","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0032773","count":14},{"id":"GO:0007399","count":14},{"id":"GO:0060488","count":14},{"id":"GO:0048105","count":14},{"id":"GO:0048023","count":14}]},{"hash":"1711519627610268224","title":"Oxidative stress response and vascular development","description":"These proteins cluster around redox biology, including cell redox homeostasis and oxidant detoxification, and include vascular-related processes such as endothelial cell migration and neural crest\u2013driven heart formation. The presence of ion/stress terms (cation stress, sodium transporter activity) supports a broader redox- and ion-homeostasis theme that ties into vascular biology. Overall, the dominant signal points to oxidative stress management linked to vascular remodeling and heart development.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0043535","count":6},{"id":"GO:0098869","count":6},{"id":"GO:0071473","count":5}]},{"hash":"501553417878924120","title":"Organogenesis and differentiation","description":"Based on the top GO terms, the cluster centers on developmental and differentiation processes across multiple organs, including lung morphogenesis (epithelial tube branching, alveolar septum development), heart development (secondary heart field), ovarian follicle growth, and retinal neuron differentiation. Although a few immune-related and epigenetic terms appear, the dominant pattern is organogenesis and tissue-specific differentiation.","confidence":"Medium","size":16,"edges":101,"triangles":357,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060441","count":16},{"id":"GO:0002053","count":16},{"id":"GO:0031064","count":16},{"id":"GO:0035881","count":16},{"id":"GO:0061144","count":16}]},{"hash":"852579751901386881","title":"Unknown","description":"The top GO terms span diverse biological themes from hormone biosynthesis and signal transduction to vesicle transport, chromatin regulation, RNA processing, and ion channel regulation, with no clear single pathway or function tying them together. ThisMakes it difficult to assign a cohesive, specific label to the cluster.","confidence":"","size":16,"edges":93,"triangles":283,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0009688","count":5},{"id":"GO:0032487","count":5},{"id":"GO:0072383","count":5},{"id":"GO:1990705","count":5},{"id":"GO:0090055","count":5}]},{"hash":"2028585593258809889","title":"Auditory receptor development and axon guidance","description":"This cluster is dominated by GO terms tied to the auditory system and neural wiring, including auditory receptor cell development, detection of mechanical stimuli in sound, and semaphorin-plexin signaling in axon guidance, with supporting evidence from cell adhesion and signaling processes. While a few terms are broader or unrelated (e.g., vitamin D3 metabolism, vascular differentiation), the strongest, most coherent theme centers on development and connectivity of auditory neurons.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1905065","count":7},{"id":"GO:0000187","count":6},{"id":"GO:0060117","count":6},{"id":"GO:0042102","count":6},{"id":"GO:0007157","count":6}]},{"hash":"2072537706404869445","title":"Dopaminergic Brain Reward and Drug Response","description":"Most terms point to neural signaling and behavior in the brain, especially dopaminergic synaptic transmission and responses to drugs of abuse (cocaine, morphine). The ERK1/2 cascade regulation supports synaptic plasticity in reward pathways, aligning with a dopamine-driven reward/drug-response module, with some ancillary brain-related terms likely reflecting broader neural context.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0048148","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0007601","count":14},{"id":"GO:0043278","count":14}]},{"hash":"212104199067085772","title":"Dopaminergic GPCR Signaling and Blood Pressure Regulation","description":"The top GO terms are heavily centered on G protein-coupled receptor signaling, including adenylate cyclase activation and GPCR pathways, with specific emphasis on dopaminergic synaptic transmission and positive regulation of blood pressure, suggesting a theme of GPCR-driven signaling affecting vascular tone and dopaminergic signaling. Some terms like the electron transport chain appear as outliers, but the dominant pattern supports a GPCR/dopaminergic regulation of vascular function. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0001963","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0022900","count":9}]},{"hash":"2174442801378962507","title":"Cardiac GPCR Signaling and Heart Contraction","description":"The cluster centers on heart-related processes: heart development, cardiac muscle contraction, and GPCR signaling pathways (including acetylcholine and tachykinin receptor signaling) with components of GPCR internalization and regulation of contraction, suggesting a coherent cardiac signaling and function module.","confidence":"High","size":16,"edges":38,"triangles":28,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0002029","count":4},{"id":"GO:0007217","count":4},{"id":"GO:0060048","count":4},{"id":"GO:0018107","count":4}]},{"hash":"1847794790427398766","title":"Nucleolar ribosome biogenesis","description":"The top GO terms concentrate on ribosome production and processing: maturation of SSU-rRNA, small-subunit processome assembly, and transcriptional upregulation of rRNA by RNA polymerase I, all hallmark steps of nucleolar ribosome biogenesis. Additional signals about spliceosome-associated RNA processing and initiation of translation factors suggest a broader link to RNA processing and translation initiation, consistent with a cluster centered on ribosome assembly and early translation control. Some terms are peripheral or broad, but the core theme remains ribosome biogenesis and translation initiation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048642","count":2},{"id":"GO:0030490","count":1},{"id":"GO:1901838","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0097010","count":1}]},{"hash":"1384072404046608959","title":"Cardiac sarcomere organization and contraction","description":"The top terms are dominated by sarcomere organization and cardiac muscle contraction, with additional signals related to heart-rate regulation and mechanical response, suggesting proteins tied to cardiac muscle function and sarcomere assembly. Other terms appear less representative (cytokine signaling, defense response, spicule insertion) but do not override the cardiac focus.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0003065","count":2},{"id":"GO:1904753","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0060298","count":2}]},{"hash":"769169369094090416","title":"Mitochondrial metabolism and transport","description":"The top GO terms are dominated by mitochondrial processes (malate-aspartate shuttle, mitochondrial membrane fission, mitochondrial ATP transmembrane transport, heme transport, phosphate and nucleotide transport) and metabolic responses (fatty acid and amino acid starvation) plus apoptotic mitochondrial changes, suggesting a cohesive role in mitochondrial energy production and substrate/ion transport. This points to a function cluster centered on mitochondrial metabolism and transport activities.","confidence":"High","size":16,"edges":62,"triangles":105,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0061179","count":16},{"id":"GO:0034198","count":15},{"id":"GO:0008637","count":15},{"id":"GO:0015886","count":15},{"id":"GO:0043490","count":15}]},{"hash":"2046280597892122396","title":"Developmental and immune regulation","description":"This cluster centers on broad developmental processes (multicellular organism development, CNS development, organ induction, angiogenesis) but also includes immune-modulatory functions (negative regulation of macrophage activation, regulatory T cell differentiation, IL-4 production) and phagocytosis. The mix suggests proteins involved in organismal development with concurrent modulation of immune signaling and macrophage activity, rather than a single cohesive pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0045590","count":2},{"id":"GO:0043031","count":2},{"id":"GO:0035584","count":2}]},{"hash":"1074590811707378329","title":"Insulin signaling and glucose transport","description":"The cluster is dominated by GO terms for insulin receptor signaling and glucose transport (GO:0015758, GO:0008286, GO:0046628), indicating a core role in insulin-mediated metabolic regulation and glucose uptake. The inclusion of heart and placenta development terms (GO:0007507, GO:0001893) suggests tissue- or development-specific contexts where these pathways operate, but the central theme remains insulin signaling and glucose transport. Overall, the proteins appear to function together in insulin-driven metabolic processes with related developmental roles.","confidence":"High","size":16,"edges":10,"triangles":1,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001893","count":7},{"id":"GO:2001275","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0015758","count":6}]},{"hash":"307508551157507713","title":"Transcription Regulation and Immune Signaling","description":"Based on the Top Terms, the cluster is dominated by DNA-templated transcription and regulation of transcription (including negative regulation by RNA Pol II), indicating a core transcriptional control theme. Additional terms point to signaling- and development-related contexts (cAMP, TGF-beta stimulus) and innate immune responses (defense against Gram-positive bacteria, response to LPS) as contexts in which these regulators operate, with skin development suggesting tissue-specific aspects. An obsolete DNA methylation term appears as noise. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0043588","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0032496","count":3}]},{"hash":"2280703342194905048","title":"Eye morphogenesis and patterning regulators","description":"Top GO terms indicate emphasis on embryonic/eye development (embryonic eye morphogenesis, camera-type eye development) and left-right patterning, with additional transcriptional regulation by RNA polymerase II. Immune terms are present but secondary. Overall, the cluster points to regulators of eye morphogenesis and related developmental patterning, with a transcriptional regulatory role.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0006366","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0050830","count":4}]},{"hash":"485550845191476487","title":"Ubiquitin-Dependent Proteolysis & Transcriptional Regulation","description":"This cluster centers on ubiquitin-mediated protein turnover, as seen in ubiquitin-dependent proteolysis and K48/K6-linked ubiquitination, with connections to transcriptional and chromatin regulation (histone catabolic process, dosage compensation) and immune signaling (NF-kappaB activation, V(D)J recombination). The recurring theme is ubiquitin-driven control of proteostasis that shapes transcription, chromatin state, circadian timing, and immune-related processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0070936","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0007250","count":6},{"id":"GO:0033151","count":6}]},{"hash":"855226981120084459","title":"Craniofacial and cranial nerve morphogenesis","description":"The top GO terms cluster around embryonic development of head structures and cranial nerves (roof of the mouth, cranial skeleton, middle ear, oculomotor and trochlear nerve formation, olfactory bulb differentiation), indicating a cohesive theme of craniofacial and neural morphogenesis. Additional terms like lung epithelial tube branching suggest broader morphogenetic processes, and transcriptional regulation terms point to developmental gene control; overall, the dominant pattern is embryonic morphogenesis of craniofacial and cranial neural structures.","confidence":"High","size":16,"edges":20,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0060021","count":3},{"id":"GO:1903026","count":3},{"id":"GO:2000836","count":2},{"id":"GO:0021642","count":2}]},{"hash":"732427325082882318","title":"TNF-NF-\u03baB inflammatory signaling via ubiquitination","description":"This cluster centers on ubiquitin-dependent protein turnover and NF-kappaB pathway activation, including TNF-mediated signaling, I-kappaB phosphorylation, and innate immune responses, suggesting a cohesive role in TNF/NF-\u03baB\u2013driven inflammation regulated by ubiquitination.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0007250","count":8},{"id":"GO:0090073","count":8},{"id":"GO:0033209","count":8},{"id":"GO:0051865","count":8}]},{"hash":"2161343481055525759","title":"Multisystem development and differentiation signals","description":"The top GO terms point to developmental processes across multiple tissues\u2014skeletal muscle fiber development, vascular morphogenesis, and fat cell differentiation\u2014along with general regulatory processes like protein ubiquitination and negative regulation of CDK activity. While a couple terms relate to neural functions (visual perception, memory), the dominant pattern is multisystem development and tissue differentiation coupled with signaling regulation. This makes \u201cMultisystem development and differentiation signals\u201d a concise, representative label for the cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007613","count":3},{"id":"GO:0048741","count":3}]},{"hash":"990631965521607508","title":"Ubiquitin-Mediated Immune Regulation","description":"The cluster is characterized by strong enrichment for ubiquitination-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination, K6-linked ubiquitination, autoubiquitination) and immune responses (innate and adaptive immunity, defense against virus) with links to TNF/NF-kappaB signaling. This points to a group of proteins that regulate immune signaling through ubiquitin modification, possibly including chromatin-related regulation via histone ubiquitination.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0016567","count":7},{"id":"GO:1903265","count":6},{"id":"GO:0002250","count":5},{"id":"GO:0051092","count":5}]},{"hash":"1121770903932727055","title":"Actin Cytoskeleton Remodeling in Muscle Development","description":"The cluster centers on actin dynamics and cytoskeletal signaling (actin filament branching, Rac regulation, GTPase activity), microtubule movement, and striated muscle differentiation, with accompanying cues from TGF-beta signaling and cell spreading, suggesting coordinated remodeling during muscle development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0071560","count":3}]},{"hash":"1588066231180649897","title":"Innate immune signaling and cytoskeleton remodeling","description":"This cluster centers on innate immune activation, NF-kappaB/TNF signaling, and actin cytoskeleton dynamics (Rho-regulated), suggesting proteins that couple inflammatory signaling with cytoskeletal remodeling and apoptosis processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0032760","count":3},{"id":"GO:0014808","count":3},{"id":"GO:0007275","count":3}]},{"hash":"93391776980941750","title":"Isoprenoid biosynthesis","description":"The cluster centers on terpenoid/sterol metabolism, with multiple terms for geranyl/farnesyl/geranylgeranyl diphosphate biosynthesis, monoterpene, cholesterol, and quinone biosynthesis, indicating a cohesive isoprenoid biosynthesis theme; a few general terms are present but do not override this core function.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0033384","count":3},{"id":"GO:0045337","count":3},{"id":"GO:0006695","count":3}]},{"hash":"190498573317378681","title":"Neuroimmune signaling and neural development","description":"This cluster ties together innate immune responses (defense against bacteria, LPS signaling, innate immunity) with neural development processes (corpus callosum development, axonogenesis, myelination, synapse assembly) and nociceptive behavior, suggesting proteins involved in neuroimmune interactions that influence CNS development and pain responses.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0031663","count":7},{"id":"GO:0022038","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0061368","count":6}]},{"hash":"794490827818682338","title":"Lipid and steroid biosynthesis","description":"In this cluster, the top GO terms cluster around lipid and steroid metabolism: sphingolipid biosynthesis, fatty acid elongation, glucocorticoid biosynthesis, and C21-steroid hormone metabolic processes. Retinal metabolic process and lung development further support a lipid- and steroid-centric biological context, possibly linked to tissue-specific development. A few terms related to antibiotic-related biosynthesis/response appear as outliers, so the connection is not perfectly cohesive.","confidence":"Medium","size":15,"edges":96,"triangles":349,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":14},{"id":"GO:0030148","count":14},{"id":"GO:0006355","count":14},{"id":"GO:0042619","count":14},{"id":"GO:0030324","count":14}]},{"hash":"46366323150064974","title":"Developmental transcriptional regulation and differentiation","description":"This cluster is enriched for transcriptional control and chromatin remodeling terms (negative regulation of transcription by RNA Pol II, DNA-templated transcription, chromatin remodeling) and several embryonic development/differentiation processes across tissues (pancreas, skeletal muscle, neural crest, forebrain glial differentiation, digestive tract morphogenesis, ureteric bud branching), suggesting proteins that coordinate transcriptional programs guiding organogenesis and tissue differentiation.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0031018","count":8},{"id":"GO:0043044","count":6},{"id":"GO:0035914","count":6}]},{"hash":"848630342547742222","title":"Transcriptional Regulators in Immunity and Development","description":"This cluster centers on transcription-related GO terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) while also including defense responses to bacteria and development/tissue remodeling terms (biomineral tissue development, blastocyst development, plasminogen activation, fractalkine production). The combination suggests proteins that regulate transcription to coordinate immune signaling and developmental/tissue-remodeling processes, rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0035264","count":4}]},{"hash":"2012698857044112461","title":"Neural Calcium Signaling and Exocytosis","description":"These proteins show a coherent pattern of calcium-dependent signaling and neurotransmitter release in neural contexts: presynaptic calcium regulation, phosphatidylinositol-mediated signaling, PKC-related pathways, calcineurin-NFAT signaling, and exocytosis, with contextual hints from corticosterone response and astrocyte differentiation. This combination points to a functional cluster centered on calcium-driven neural signaling and synaptic exocytosis.","confidence":"Medium","size":15,"edges":45,"triangles":61,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051412","count":9},{"id":"GO:0048708","count":9},{"id":"GO:0007205","count":9},{"id":"GO:0016061","count":9},{"id":"GO:0010801","count":9}]},{"hash":"2262266332235455916","title":"Unknown","description":"The terms span diverse processes, including meiosis, sterol/vitamin D metabolism, STAT signaling, chromatin modification, sterol import, glycogen metabolism, apoptotic clearance, and development; there is no single cohesive function evident across the cluster.","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":15},{"id":"GO:0070640","count":15},{"id":"GO:0042523","count":15},{"id":"GO:2000775","count":15},{"id":"GO:0035376","count":15}]},{"hash":"502823546848702569","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":29,"triangles":23,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0000463","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0000466","count":4}]},{"hash":"1229496174960157744","title":"Central Metabolism and Biosynthetic Pathways","description":"This cluster shows enrichment for TCA cycle and oxaloacetate metabolism, along with amino acid catabolic processes (alanine, aspartate) and several biosynthetic pathways (porphyrin/heme, sphingolipids, cobalamin, tyrosine, kynurenic acid), indicating a module of core energy metabolism linked to diverse biosynthesis across amino acids, lipids, cofactors, and vitamins.","confidence":"High","size":15,"edges":101,"triangles":406,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006107","count":8},{"id":"GO:0006782","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0006533","count":5}]},{"hash":"1849983722637478719","title":"Neural Sensory Signaling and Thermoregulation","description":"Based on the top GO terms, the cluster centers on neural signaling and sensory processing, with strong signals for pain perception, visual perception/learning, and dopaminergic synaptic transmission. It also includes temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and signaling cascades (ERK, protein phosphorylation), suggesting a cohesive theme of sensory and neural signaling coupled with temperature-responsive pathways. A few terms (like heart development) may reflect wider roles of these proteins but are less representative of the core theme.","confidence":"High","size":15,"edges":36,"triangles":12,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0007601","count":7},{"id":"GO:0070374","count":7}]},{"hash":"1535632266507797550","title":"RTK signaling and angiogenic response","description":"This cluster centers on receptor tyrosine kinase\u2013mediated signaling and processes that drive angiogenesis and growth-factor\u2013responsive pathways. Several top GO terms reference autophosphorylation of tyrosine kinases, RTK signaling (growth hormone receptor signaling, neurotrophin TRK signaling), and angiogenesis. Additional terms like cellular response to nitric oxide and retinoic acid response indicate broader signaling responsiveness in development and vascular contexts. Taken together, the proteins likely participate in RTK-driven signaling networks that regulate vascular growth and differentiation.","confidence":"Medium","size":15,"edges":19,"triangles":2,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2000251","count":15},{"id":"GO:0071300","count":15},{"id":"GO:1900086","count":15},{"id":"GO:0007257","count":15},{"id":"GO:0060396","count":15}]},{"hash":"331059470831051371","title":"RNA Splicing and Translation Regulation","description":"The top GO terms cluster around both mRNA processing (positive/negative regulation of splicing via spliceosome, small-subunit processome assembly) and translation control (eIF4F complex assembly, regulation of translational initiation, translation reinitiation, and stress-related mRNA stability). This suggests a cohesive module of proteins involved in post-transcriptional gene regulation, linking RNA maturation with initiation/reinitiation of translation and stress responses, rather than a single pathway.","confidence":"High","size":15,"edges":102,"triangles":419,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0097010","count":9},{"id":"GO:0034462","count":9},{"id":"GO:0048025","count":9}]},{"hash":"1676634471867938141","title":"Unknown","description":"The top GO terms span viral release, bacterial cell wall/macromolecule catabolism, neural signaling and taste, calcium signaling via GPCRs, cytoskeletal polarity, and basic energy metabolism, with no clear single biological theme tying the cluster together. This mixture suggests heterogeneous annotations or a mixed-species set, so a single representative function cannot be assigned.","confidence":"","size":15,"edges":97,"triangles":364,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":12},{"id":"GO:0009253","count":12},{"id":"GO:0016998","count":12},{"id":"GO:0051966","count":12},{"id":"GO:0051482","count":11}]},{"hash":"1931593478511540860","title":"Cell Adhesion and Tissue Morphogenesis","description":"Top GO terms emphasize cell-cell and cell-matrix adhesion, branching morphogenesis, and sprouting angiogenesis, with supporting roles in ECM remodeling and neural development. This suggests the proteins function together in adhesion-mediated tissue formation and morphogenesis during development.","confidence":"High","size":15,"edges":21,"triangles":8,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0007160","count":14},{"id":"GO:0006590","count":11},{"id":"GO:0001867","count":11},{"id":"GO:0007275","count":11}]},{"hash":"1970997292086640614","title":"Mitochondrial dynamics and Golgi organization","description":"The top GO terms point to mitochondrial fusion/fission and related membrane remodeling, plus Golgi retention and organization. This combination suggests proteins involved in organelle membrane dynamics and trafficking, especially at mitochondria and the Golgi, with ancillary links to synaptic vesicle processes and membrane potential regulation.","confidence":"Medium","size":15,"edges":11,"triangles":0,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":12},{"id":"GO:0045053","count":9},{"id":"GO:1903358","count":9},{"id":"GO:0008053","count":8},{"id":"GO:0060988","count":8}]},{"hash":"25196766802557789","title":"Diverse Nutrient and Ion Transporters","description":"GO terms indicate strong enrichment for transmembrane transport of a variety of substrates (nitrate, sugars like arabinose and fucose, vitamins, phosphate, hydroxyphenylacetate) and ions (sodium, potassium), suggesting these proteins function primarily as membrane transporters for diverse nutrients and ions. A single transcription-regulation term is present but does not override the dominant transport theme.","confidence":"High","size":15,"edges":22,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0071805","count":2}]},{"hash":"639248669679488207","title":"Mitochondrial transport and membrane dynamics","description":"The cluster centers on mitochondrial processes: regulation of membrane permeability, various transmembrane transports (ATP, deoxynucleotide, phosphate, heme), and membrane remodeling such as fission, plus the malate-aspartate shuttle and apoptotic changes. The presence of metabolic-stress terms (amino acid starvation, fatty acid response) further ties these proteins to mitochondrial metabolism and signaling under stress. Overall, the terms converge on mitochondrial transport and membrane dynamics as the core function of this group.","confidence":"High","size":15,"edges":26,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":5},{"id":"GO:0034198","count":4},{"id":"GO:0008637","count":4},{"id":"GO:0015886","count":4},{"id":"GO:0043490","count":4}]},{"hash":"562859698887754269","title":"Mitochondrial energy metabolism and dynamics","description":"The top GO terms cluster around mitochondrial functions: energy-related processes (malate-aspartate shuttle, mitochondrial ATP transmembrane transport, deoxynucleotide transport), mitochondrial dynamics (mitochondrial membrane fission) and cues for apoptosis (apoptotic mitochondrial changes). Additional terms like heme transport and responses to fatty acids, amino acid starvation, and IGF signaling all fit mitochondrial metabolism and signaling, supporting a cohesive theme of mitochondrial energy production and structural regulation.","confidence":"High","size":15,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":4},{"id":"GO:0008637","count":4},{"id":"GO:0015886","count":4},{"id":"GO:0043490","count":4},{"id":"GO:0090149","count":4}]},{"hash":"918116064838568225","title":"Developmental Growth and Transcriptional Regulation","description":"This cluster centers on developmental processes and growth control (endodermal differentiation, luteinization, fibroblast migration, hippo signaling, and growth regulation), combined with transcriptional control (DNA-templated transcription). The presence of stress-related responses (cadmium, gamma radiation, psychosocial stress) suggests transcriptional programs that link development with environmental responses, but the core theme remains growth and differentiation regulated at the transcriptional level.","confidence":"Medium","size":15,"edges":99,"triangles":385,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0001553","count":2},{"id":"GO:0035332","count":2},{"id":"GO:0010761","count":2}]},{"hash":"815671394619461870","title":"Embryonic organogenesis and neural development","description":"The set includes terms for retina development, osteoblast/skeletal morphogenesis, thyroid and endocrine pancreas development, cranial skeleton morphogenesis, ureteric bud branching, and spinal cord motor neuron fate\u2014indicating a broad involvement in embryonic tissue differentiation and organ formation rather than a single pathway. This multisystem developmental theme best fits the cluster.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0090190","count":6},{"id":"GO:0002076","count":5},{"id":"GO:0002087","count":5}]},{"hash":"423751010820984229","title":"ER-Golgi trafficking and Golgi organization","description":"Most of the top GO terms describe vesicle transport between the ER and the Golgi, retrograde transport, and regulation of Golgi organization, pointing to a secretory pathway focus. Additional terms like protein folding and ATP-dependent activity fit into protein processing within this pathway, reinforcing a coherent ER-Golgi trafficking and maturation theme.","confidence":"High","size":15,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:1903358","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051259","count":2}]},{"hash":"1961969483465685389","title":"Ubiquitin-dependent protein degradation","description":"The top GO terms are centered on ubiquitin tagging and proteasome-driven turnover (ubiquitin-dependent protein catabolic process, polyubiquitination, K48-linked ubiquitination, autoubiquitination, and ERAD-related pathways). This points to a cluster whose proteins mainly participate in marking substrates for degradation. Some outlier terms about dosage compensation or peroxisomal import likely reflect annotation noise, but the dominant signal is the ubiquitin-proteasome system. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0030433","count":8},{"id":"GO:0060816","count":6},{"id":"GO:1900095","count":6},{"id":"GO:0038018","count":6}]},{"hash":"945913754272878457","title":"ER\u2013Golgi vesicle transport and pigmentation","description":"Based on GO terms such as ER to Golgi vesicle transport, intracellular protein transport, retrograde Golgi-ER transport, endosome to melanosome transport, pigmentation, and synaptic vesicle recycling, the cluster is best described as a group of proteins involved in intracellular vesicle trafficking with a pigmentation/melanosome component. The presence of Golgi localization and neuron-associated terms suggests additional neuron-specific trafficking roles, but the unifying theme remains vesicle trafficking within secretory and endocytic pathways.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0030100","count":2},{"id":"GO:0021691","count":2},{"id":"GO:0035646","count":2}]},{"hash":"549217677458901871","title":"Angiogenesis and lipoprotein clearance","description":"The GO terms cluster around vascular development and lipid handling: positive regulation of angiogenesis and sprouting angiogenesis, endothelial chemotaxis regulation, endocytosis involved in cholesterol transport, and very-low-density lipoprotein particle clearance, suggesting a vascular growth/lipid metabolism theme. Some development signals (Wnt-related terms) and hair orientation terms appear but are less central to the main pattern.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0044332","count":6},{"id":"GO:0048105","count":6},{"id":"GO:0001867","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0045766","count":5}]},{"hash":"1789925156341335413","title":"RNA processing and translation regulation","description":"The top terms cluster around RNA metabolism and control of gene expression at the translational level (splicing via spliceosome, primary miRNA processing, siRNA processing, and regulation of translational initiation). A few terms (phototaxis, hair follicle maturation) are outliers or obsolete, but the core signal points to RNA processing and translational regulation as the defining function of the group.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042331","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031053","count":2},{"id":"GO:1905618","count":2},{"id":"GO:1900363","count":2}]},{"hash":"818012430912952092","title":"Embryo-placental development and transcription regulation","description":"This cluster is dominated by terms tied to embryonic/placental development (left-right patterning, trophoblast/placental differentiation, multicellular growth) and transcription regulation (RNA polymerase II preinitiation complex assembly, RNA-templated transcription), suggesting proteins that coordinate development through transcriptional control. Although a few terms are obsolete, the overarching theme is embryogenesis and placenta-related development with gene expression regulation as a central mechanism.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035264","count":11},{"id":"GO:0009636","count":11},{"id":"GO:0001172","count":10},{"id":"GO:0033683","count":10},{"id":"GO:0045899","count":10}]},{"hash":"214768602453068427","title":"DNA Repair and Embryonic Development","description":"The cluster shows strong enrichment for DNA repair pathways (base-excision repair; nucleotide-excision repair; DNA incision) alongside several embryonic development processes (pancreatic cell development; left-right pattern formation; trophoblast/placental differentiation; endocrine system development). This suggests proteins that may participate in genome maintenance during development or connect DNA repair with developmental signaling. However, there are no inferred interactions in this dataset, so the link is interpretive rather than demonstrated.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033683","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0060806","count":14}]},{"hash":"2247801790719084790","title":"Mitochondrial Transport and Metabolism","description":"The top GO terms point to mitochondrial processes, including malate-aspartate shuttle, mitochondrial ATP transmembrane transport, mitochondrial membrane fission, apoptotic mitochondrial changes, and heme transport, with additional transport terms (phosphate ion, deoxynucleotide) and signaling links to fatty acid and glucose responses. This cohesive set indicates a cluster centered on mitochondrial transport, metabolism, and dynamics rather than unrelated pathways.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":4},{"id":"GO:0061179","count":4},{"id":"GO:0034198","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0015886","count":3}]},{"hash":"1657560857343919610","title":"Neural Development and Signaling","description":"This cluster is characterized by GO terms tied to nervous system development and neurogenesis, with supporting terms for angiogenesis and various signaling pathways (phosphatidylinositol-mediated signaling and STAT tyrosine phosphorylation). The presence of apoptotic processes, cell proliferation regulation, insulin secretion, and ribophagy suggests broader cellular regulation, but the dominant motif is neural development and its signaling networks. Hence the chosen label reflects the central theme.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0042517","count":3},{"id":"GO:0006915","count":3}]},{"hash":"491498120121918518","title":"Vascular coagulation and ECM remodeling","description":"The cluster is enriched for coagulation-related terms (Factor XII activation, positive regulation of blood coagulation, positive regulation of fibrinolysis) and endothelial barrier establishment, along with elastin catabolic and biomineral tissue development processes. This points to a functional theme around vascular integrity, extracellular matrix remodeling, and coagulation pathways, with more general developmental terms present as secondary associations. Therefore, a vascular/coagulation ECM remodeling label best captures the shared function.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0042127","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007498","count":2},{"id":"GO:1903142","count":2}]},{"hash":"1850391629714129955","title":"Mitotic Cell Cycle and Proliferation","description":"The top GO terms are strongly centered on cell division and the cell cycle (cell division, cell cycle, mitotic cell cycle, exit from mitosis), indicating the cluster mainly groups proteins involved in mitotic progression and proliferative processes. Additional terms like ribosomal large subunit export from the nucleus and maintenance of cell polarity align with cellular growth and division readiness, while a few neural development-related terms appear as broader contextual annotations. Overall, the dominant theme is mitotic progression and proliferation.","confidence":"Medium","size":14,"edges":67,"triangles":165,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0007049","count":8},{"id":"GO:0000055","count":8},{"id":"GO:0030011","count":7},{"id":"GO:0010458","count":7}]},{"hash":"483618814471770578","title":"Cell growth, ribosome biogenesis, and ER-Golgi trafficking","description":"This cluster centers on growth-related biosynthetic processes (ribosome biogenesis and rRNA maturation) and cell-cycle regulation (an APC-dependent catabolic process), with supporting themes of vesicle trafficking between the ER and Golgi. The presence of terms for ribosome biogenesis, rRNA processing, and both directions of ER-Golgi transport, along with cell division-related terms, suggests a cohesive theme of cellular growth and protein handling, despite some older/obsolete GO entries. Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0007568","count":5},{"id":"GO:0071276","count":5},{"id":"GO:2001162","count":5}]},{"hash":"359134243157879071","title":"Hepatic amino acid catabolism and gluconeogenesis","description":"Dominant signals are gluconeogenesis, pyruvate metabolism, and multiple amino acid catabolic processes (alanine, leucine, kynurenine), plus liver development. This pattern fits hepatic metabolism and amino acid breakdown, with Notch signaling appearing less central.","confidence":"High","size":14,"edges":78,"triangles":286,"max_degree":12,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0019878","count":5},{"id":"GO:0006094","count":5},{"id":"GO:0007219","count":4},{"id":"GO:0097053","count":4},{"id":"GO:0042853","count":4}]},{"hash":"87215356244695945","title":"Unknown","description":"The GO terms are diverse, spanning nucleotide salvage, organelle inheritance, cytoskeletal assembly and endocytosis, and various developmental processes, with no clear, cohesive function tying all proteins together. A single intuitive label is not supported by the shared biology in this cluster.","confidence":"","size":14,"edges":63,"triangles":133,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0019358","count":5},{"id":"GO:0000001","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0030100","count":3},{"id":"GO:0030476","count":3}]},{"hash":"1588591721828148195","title":"Cardiac muscle contraction and electrophysiology","description":"The GO terms show a clear cardiac theme: calcium release from the sarcoplasmic reticulum into the cytosol, regulation of cardiac membrane potential and SA node action potentials, and enhancement of force of heart contraction. Additional terms involve atrial and left-ventricular morphogenesis, outflow tract development, and epinephrine response, all pointing to heart development and regulation of cardiac electrical activity. Taken together, these terms capture excitation-contraction coupling and cardiac morphogenesis, suggesting this cluster represents cardiac muscle function and heart development.","confidence":"High","size":14,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0014808","count":4},{"id":"GO:0086036","count":3},{"id":"GO:0098735","count":3},{"id":"GO:0014850","count":3},{"id":"GO:0098910","count":3}]},{"hash":"593328400643372224","title":"RNA splicing and translation initiation regulation","description":"The cluster is enriched for GO terms related to spliceosome assembly and regulation of mRNA splicing, plus terms about eIF4F complex assembly, translation initiation regulation and reinitiation, and mRNA stability/poly(A) tail regulation in stress. This suggests a cohesive group of proteins coordinating RNA processing with translation control, especially under stress.","confidence":"Medium","size":14,"edges":77,"triangles":226,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0097010","count":6},{"id":"GO:0034462","count":6},{"id":"GO:0048025","count":6},{"id":"GO:1900363","count":6}]},{"hash":"756553021390762577","title":"Transcriptional regulation and membrane transport","description":"The cluster centers on transcription-related processes (negative regulation of transcription by RNA polymerase II and DNA-templated transcription) alongside multiple membrane transport activities (xenobiotic, phosphate, potassium, and galactose transmembrane transport). Developmental processes such as osteoblast differentiation and spermatogenesis, plus neurotransmitter loading, suggest a broader regulatory and transport role during development. While the terms span several functions, the combination of transcriptional control and membrane transport provides the most coherent theme for the group.","confidence":"Medium","size":14,"edges":30,"triangles":24,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0001649","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0006855","count":2}]},{"hash":"1931398391346362540","title":"Synaptic vesicle cycling and calcium signaling","description":"Dominant GO terms include synaptic vesicle endocytosis, endocytic recycling, Rab-regulated trafficking, and calcium release from the sarcoplasmic reticulum, complemented by neural/glial differentiation and hormonal responses, suggesting this cluster centers on vesicle trafficking and calcium-dependent signaling in neural cells.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0048488","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0032456","count":2},{"id":"GO:0032483","count":2}]},{"hash":"2017427140841046506","title":"Meiosis I Chromosome Cohesion and Synaptonemal Complex","description":"Top terms cluster around meiotic chromosome dynamics: cohesion of sister chromatids (including centromeric), synaptonemal complex assembly, chromosome condensation, spindle attachment to meiosis I kinetochores, oocyte maturation, and DSB repair via sister chromatid exchange. The collection points to proteins involved in meiotic chromosome cohesion, synapsis, and segregation, with fertilization as a later gamete-related context. This coherent meiotic theme supports the chosen label.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010789","count":1},{"id":"GO:0007141","count":1},{"id":"GO:0009566","count":1},{"id":"GO:0007130","count":1},{"id":"GO:0001556","count":1}]},{"hash":"1676341049677867107","title":"Unknown","description":"The terms are highly diverse, covering meiotic spindle organization, vitamin D3 metabolism, sterol import, STAT phosphorylation regulation, histone H3-S10 phosphorylation, glycogen catabolism regulation, apoptotic cell clearance, and both general and CNS-specific development. This mix does not point to a single cohesive function or pathway, making a specific, representative label inappropriate. ","confidence":"","size":14,"edges":39,"triangles":27,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":14},{"id":"GO:0070640","count":14},{"id":"GO:0042523","count":14},{"id":"GO:2000775","count":14},{"id":"GO:0035376","count":14}]},{"hash":"632961563410268266","title":"Pain and Temperature Sensory and Inflammatory Response","description":"The top GO terms are dominated by pain perception, temperature-stimulated responses, and inflammatory signaling, suggesting a cluster centered on nociception and temperature-related signaling with inflammation. Some tissue development terms appear, but the core theme remains temperature/pain sensing and inflammation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0060427","count":6},{"id":"GO:0060658","count":6}]},{"hash":"637887490370836487","title":"Translation initiation and preinitiation complex assembly","description":"Based on the top GO terms, the cluster is strongly enriched for translation initiation processes\u2014translation reinitiation, formation of the translation preinitiation complex, regulation of translational initiation, and eIF4F complex assembly\u2014with related IRES-dependent viral initiation terms. While a few spliceosome-associated terms appear, the dominant theme is initiation of translation, suggesting these proteins function in assembling/regulating the translation initiation machinery (including viral contexts).","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0006378","count":8},{"id":"GO:0006446","count":7},{"id":"GO:0075525","count":7}]},{"hash":"1408892569380768271","title":"NF-kappaB-driven immune development and ubiquitination","description":"The terms converge on NF-kappaB signaling (canonical activation and IKK activity) and immune system development (spleen, lymph node, T cell homeostasis), with strong emphasis on ubiquitin-dependent protein turnover (ERAD, polyubiquitination). This points to a cohesive module where NF-kappaB activity shapes immune development and is tightly linked to ubiquitin-mediated regulation of proteins.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0048536","count":6},{"id":"GO:0043029","count":6},{"id":"GO:0030433","count":6}]},{"hash":"708320529602117633","title":"Immune Activation and Inflammatory Signaling","description":"This cluster emphasizes immune and inflammatory processes, with terms for complement activation, basophil and NK cell regulation, response to fungal molecules, platelet activation, and arachidonic acid signaling. While a couple of development-related terms appear, the overall pattern points to innate immune activation and inflammatory signaling.","confidence":"Medium","size":14,"edges":45,"triangles":56,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001502","count":11},{"id":"GO:0060355","count":11},{"id":"GO:0051873","count":11},{"id":"GO:0071226","count":11},{"id":"GO:0001867","count":11}]},{"hash":"1343396865312465537","title":"Wnt signaling and ubiquitination in development","description":"The top GO terms cluster around Wnt signaling (GO:0016055, GO:0090263) and developmental processes such as axial mesoderm formation and dendritic spine morphogenesis, suggesting roles in signaling-driven development. Additionally, protein deubiquitination and sumoylation point to regulation of these pathways by post-translational modifications, supporting a theme of signaling modulation during development, despite some obsolete terms present.","confidence":"Medium","size":14,"edges":10,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":3},{"id":"GO:1904378","count":3},{"id":"GO:0014070","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0016925","count":3}]},{"hash":"523734113744628133","title":"Developmental Regulation and Cellular Signaling","description":"The top GO terms point to development (multicellular organism development, gastrulation) alongside signaling and regulation (positive regulation of GTPase activity, GPCR signaling) and cellular processes like protein ubiquitination, cell division, and vesicle transport. While some terms are obsolete or broad and there are no observed edges tying the proteins into a single pathway, the cluster seems to collect proteins involved in developmental regulation and cellular signaling/trafficking, justifying a broad label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0016575","count":2}]},{"hash":"349702944599175970","title":"Neuroendocrine Stress Signaling","description":"These proteins appear linked by neuroendocrine and stress-related signaling: responses to immobilization stress, regulation of cortisol and glucocorticoid pathways, and signaling cascades (cAMP/PKA) that modulate neural activity and hormone release, plus BK channel regulation contributing to neuronal excitability. A few terms (e.g., plant-specific processes) may reflect annotation noise, but the dominant theme is stress hormone\u2013neural signaling.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":2},{"id":"GO:0010737","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0051795","count":2},{"id":"GO:0019933","count":2}]},{"hash":"1319149642920424135","title":"Ubiquitin-Dependent Proteolysis and Antiviral Defense","description":"This cluster is dominated by ubiquitin-related proteolytic processes (ubiquitin-dependent protein catabolic process, ERAD pathway, and various ubiquitination types) and by antiviral/immune functions (defense against virus, suppression of viral release, T cell proliferation, lymph node development), suggesting a cohesive module where ubiquitin tagging drives proteostasis in the context of antiviral immunity.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":9},{"id":"GO:1902187","count":9},{"id":"GO:0070534","count":9},{"id":"GO:0009896","count":7}]},{"hash":"270089495806788452","title":"Embryonic development and organogenesis","description":"The top GO terms span diverse developmental processes across multiple tissues (primitive streak formation, midbrain and PNS neuron development, odontogenesis, pituitary gland development, lung morphogenesis) plus transcriptional regulation during development, indicating a broad developmental/organogenesis theme rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0090009","count":6},{"id":"GO:0048935","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0042475","count":5}]},{"hash":"242939524152800081","title":"Ubiquitin-Dependent Regulation of Immune Signaling","description":"The cluster centers on ubiquitin-related protein catabolic and polyubiquitination processes (including K6-linked ubiquitination) and is tied to immune and antiviral signaling (NF-kappaB activation, defense against virus, RIG-I signaling regulation), with links to cell cycle control and V(D)J recombination, suggesting these proteins function in ubiquitin-mediated regulation of immune pathways.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0000209","count":6},{"id":"GO:0007250","count":5},{"id":"GO:0071157","count":5},{"id":"GO:0033151","count":5}]},{"hash":"461614217875929180","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The top GO terms cluster around ubiquitination and ubiquitin\u2011dependent protein degradation, including protein polyubiquitination and K6\u2011linked ubiquitination, which point to ubiquitin-regulated protein turnover. Also present are terms linking ubiquitin signaling to NF-\u03baB activation, cell-cycle regulation, and chromatin modification (histone methylation/acetylation), plus V(D)J recombination and dosage compensation, suggesting broader roles for ubiquitin in transcriptional regulation and immune/chromosome processes. Overall, the common theme is ubiquitin-mediated control of protein stability and signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0000209","count":7},{"id":"GO:0007250","count":6},{"id":"GO:0071157","count":6},{"id":"GO:0070512","count":6}]},{"hash":"299672063909940744","title":"Rab GTPase\u2013mediated endosomal trafficking","description":"The top GO terms cluster around intracellular transport, especially endosome-lysosome and endosome-Golgi routes, with emphasis on Rab and Rho GTPase signaling and phosphatidylinositol-mediated signaling. This points to proteins functioning together in Rab-regulated endosomal trafficking and membrane dynamics, rather than unrelated processes.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0006886","count":2}]},{"hash":"515380524337434025","title":"Embryonic organogenesis and differentiation","description":"This cluster is dominated by developmental processes across multiple lineages, including pancreatic cell development, endocardial EMT, left/right pattern formation, trophoblast and placenta-related differentiation, as well as cartilage morphogenesis and endocrine system development. The presence of transcription-related terms (DNA-templated transcription, regulation of transcription) suggests coordinated gene regulation during these developmental programs, supporting a cohesive theme of embryogenesis and organogenesis rather than a single tissue-specific function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0060806","count":14}]},{"hash":"1886868396828181420","title":"Neuronal projection growth and actin cytoskeleton remodeling","description":"The GO terms converge on neurite outgrowth and neuronal development (dendrite extension, neuron projection development, astrocyte differentiation regulation) and cytoskeletal dynamics (actin cytoskeleton organization, Rho signaling, stress fiber regulation), shaped by BDNF signaling and calcineurin-NFAT pathways. A minor term about megakaryocyte development is present but does not alter the neural-focused theme. Overall, this cluster centers on neuronal projection growth and cytoskeletal remodeling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":5},{"id":"GO:1990416","count":4},{"id":"GO:0046626","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030036","count":4}]},{"hash":"1010196309186796217","title":"Neuronal projection and dendrite morphogenesis with mitochondrial dynamics","description":"The top GO terms point to neurite development (neuron projection development, axon extension, dendrite morphogenesis) and crucial mitochondrial activities (intracellular distribution of mitochondria, negative regulation of mitochondrial fission, mitochondrial-related processes), suggesting a cohesive theme of neuronal morphogenesis linked to mitochondrial dynamics. A couple of terms (hair follicle morphogenesis, non-motile cilium assembly) appear as noise relative to the dominant neuronal theme, but do not obscure the core function. Thus, this label captures the cluster\u2019s primary biological signal.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0031069","count":2},{"id":"GO:0051012","count":2},{"id":"GO:0090258","count":2},{"id":"GO:0032930","count":2}]},{"hash":"1288479044806884102","title":"Lipid-driven inflammatory and oxidative stress response","description":"The GO terms show a cohesive pattern of inflammatory signaling (acute inflammatory response, leukotriene production, response to cytokine) together with oxidative/lipid stress handling (lipid hydroperoxide response, cellular oxidant detoxification), pointing to lipid-mediated inflammation and detoxification processes. Although cholesterol biosynthesis and Leydig cell differentiation appear, they are peripheral to the dominant inflammatory/oxidative theme. Thus the label captures the core function of the cluster.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":2},{"id":"GO:0036245","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0033327","count":1},{"id":"GO:0071449","count":1}]},{"hash":"899091448212873089","title":"Steroid hormone metabolism and xenobiotic detox","description":"The terms point to both steroid hormone pathways (aldosterone biosynthesis, brassinosteroid homeostasis, vitamin D catabolic) and reproductive development (uterus and female gonad development), as well as multiple xenobiotic/chemical catabolic processes (dibenzo-p-dioxin, carbazole, alkaloids, insecticides). This suggests a broader theme of hormone-related metabolism coupled with detoxification pathways, with reproductive development potentially tied to hormone signaling. Given the mixture of plant and animal hormone-related terms alongside detoxification processes, the label is plausible but not perfectly cohesive.","confidence":"Medium","size":13,"edges":17,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0010268","count":3},{"id":"GO:0019341","count":3},{"id":"GO:0010164","count":3},{"id":"GO:0017143","count":3}]},{"hash":"1356043921981726796","title":"Nucleotide and cofactor biosynthesis","description":"The cluster is dominated by GO terms for nucleotide metabolism and cofactor biosynthesis (NAD+ biosynthesis, CDP biosynthesis, purine interconversion, AMP salvage, ITP metabolism, and coenzyme A biosynthesis), suggesting a common role in building and balancing nucleotides and energy cofactors. Redox-related response to hydrogen peroxide is present and may tie into redox metabolism, while liver and brain development terms likely reflect tissue-specific expression rather than core function.","confidence":"Medium","size":13,"edges":60,"triangles":133,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070301","count":5},{"id":"GO:0001889","count":3},{"id":"GO:0009435","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0046705","count":3}]},{"hash":"2120001407788492023","title":"Radial glial differentiation and scaffolding","description":"This cluster is strongly enriched for GO terms related to forebrain radial glial cell differentiation and the formation of radial glial scaffolds, as well as maintenance of cell polarity, which together point to a program of radial glial development and their scaffold-based role in guiding neural progenitor migration. ER stress-related terms appear as ancillary cellular stress responses but do not define the primary function of the cluster.","confidence":"High","size":13,"edges":9,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021861","count":11},{"id":"GO:0034976","count":11},{"id":"GO:0021943","count":11},{"id":"GO:1902236","count":11},{"id":"GO:1903206","count":11}]},{"hash":"427310174599127126","title":"Mitotic Cell Cycle and Division Machinery","description":"The cluster centers on core mitotic processes (mitotic cell cycle, exit from mitosis, cell division, division septum assembly) and cell polarity, with supporting terms like ribosomal subunit export and differentiation, and a Hedgehog pathway component (smoothened). Collectively, these terms point to proteins involved in cell cycle progression and cytokinesis, with regulatory and development-related connections.","confidence":"High","size":13,"edges":46,"triangles":104,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030011","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0010458","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007224","count":5}]},{"hash":"1947142840453500150","title":"Unknown","description":"The Top Terms span diverse and unrelated processes (neural signaling, embryonic development, host\u2013pathogen interactions, viral integration, microvillus localization, and lipid biosynthesis), with no clear single theme tying the proteins together. The network shows no edges, suggesting a non-cohesive or artifact cluster rather than a defined functional group. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0039651","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0015074","count":2}]},{"hash":"776448620969347845","title":"Muscle and Heart Signaling Regulators","description":"Top GO terms show enrichment for calcium-dependent signaling and transcriptional regulation (calcineurin-NFAT, NF-kappaB), along with heart and skeletal muscle development, protein dephosphorylation, and related signaling cascades like JNK. This suggests the cluster comprises proteins that modulate signaling pathways critical for muscle and cardiac development and function, with some cytoskeletal and metabolic terms as supporting context. While a few outliers exist (tarsal gland development, sphinganine metabolism), the core theme is signaling regulation in muscle/heart contexts.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070886","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0048741","count":3}]},{"hash":"31310651949937929","title":"Cell Division and Mitochondrial Function","description":"Cluster appears to group proteins involved in cell cycle events (cell division, mitotic DNA replication checkpoint signaling) and mitochondrial energy metabolism (complex III assembly, oxidative phosphorylation, oxidative stress response). Therefore, Cell Division and Mitochondrial Function is an apt label; some terms relate to broader cellular regulation and development, but the dominant theme ties division to mitochondrial maintenance.","confidence":"Medium","size":13,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0070676","count":3},{"id":"GO:0034551","count":2},{"id":"GO:0072389","count":2},{"id":"GO:0016485","count":2}]},{"hash":"986535868670002914","title":"Amino acid biosynthesis and catabolism","description":"The top terms are dominated by biosynthesis and catabolism of multiple amino acids (L-alanine, L-aspartate, L-tyrosine, kynurenine/kynurenic acid), plus related pathways like sphinganine and cobalamin biosynthesis, pointing to a cohesive theme of amino acid metabolism and associated metabolite production. The presence of an unrelated Notch signaling term appears as an outlier rather than the main driver of the cluster\u2019s function. Overall, the cluster is best described as centered on amino acid metabolism.","confidence":"Medium","size":13,"edges":49,"triangles":123,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":8},{"id":"GO:0007219","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0097053","count":6},{"id":"GO:0006533","count":5}]},{"hash":"1470923789101972704","title":"Mammary Gland Epithelial Development and Proliferation","description":"The cluster shows strong representation of mammary gland-related terms (alveolus development and epithelial cell proliferation) along with related epithelial differentiation processes, transcriptional regulation, and cell-cycle control, suggesting a module centered on mammary epithelium development and growth, with supporting stress-response signals.","confidence":"High","size":13,"edges":22,"triangles":5,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0051301","count":10},{"id":"GO:0030968","count":10},{"id":"GO:0033327","count":10},{"id":"GO:0060749","count":10}]},{"hash":"551604139004481416","title":"Innate Immune Signaling and Tissue Morphogenesis","description":"The top GO terms cluster around innate immune activation (basophil activation, complement lectin pathway, cellular response to fungal origin, NK cell chemotaxis regulation) while also including tissue development/remodeling processes (lymph vessel morphogenesis, cartilage condensation, metanephric distal tubule morphogenesis). This points to proteins involved in immune signaling with roles in tissue morphogenesis/remodeling.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0001502","count":2},{"id":"GO:0060355","count":2},{"id":"GO:0051873","count":2}]},{"hash":"2207138951774926439","title":"TLR-driven innate immune signaling","description":"This cluster is dominated by GO terms related to innate immunity and Toll-like receptor pathways, including detection of lipopolysaccharide, Toll signaling, and regulation of cytokine production, with involvement of NF-\u03baB signaling. A few morphogenesis terms appear as noise, but the core signal points to TLR-mediated innate immune sensing and inflammatory signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0090260","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0032474","count":3},{"id":"GO:0034130","count":3}]},{"hash":"915756878255180546","title":"Gonad and reproductive tract development","description":"The top GO terms cluster around development of reproductive organs (female and male gonads, uterus) and embryo implantation, suggesting a cohesive theme of reproductive system formation and early pregnancy remodeling. Supporting terms for blood vessel maturation and cell adhesion indicate accompanying tissue morphogenesis and ECM interactions. Some outliers like bone development exist, but the dominant signal points to reproductive development with related morphogenesis processes.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":6},{"id":"GO:0060065","count":5},{"id":"GO:0032911","count":4},{"id":"GO:0060017","count":4},{"id":"GO:0034446","count":4}]},{"hash":"239204348791868128","title":"RNA splicing regulation and translation initiation control","description":"This cluster centers on both spliceosome-mediated regulation of mRNA splicing (positive/negative) and components involved in translation initiation (eIF4F complex assembly) and reinitiation, plus related RNA processing steps (small-subunit processome, poly(A) tail regulation, mRNA stability under stress). The GO terms collectively point to a cohesive module governing RNA maturation and subsequent translational control.","confidence":"High","size":13,"edges":18,"triangles":9,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0097010","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0034462","count":7},{"id":"GO:1900363","count":7}]},{"hash":"2121417158429618799","title":"Ubiquitin-Proteasome and Autophagy Regulation","description":"This cluster center around protein turnover and quality control, with GO terms for deubiquitination, ubiquitin-dependent ERAD, proteasomal degradation, and regulation of autophagosome maturation. While a few terms are obsolete or tangential (e.g., mitochondrial fusion, spindle pole body duplication), the dominant theme is ubiquitin-proteasome\u2013 and autophagy-related regulation of proteostasis.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0043154","count":2},{"id":"GO:0010950","count":2}]},{"hash":"1749829078819210396","title":"Hormone signaling and development","description":"The top GO terms point to signaling pathways mediated by receptors (insulin receptor, androgen receptor, vitamin D receptor) and to developmental processes (uterine and tarsal gland development, neural tube development). While a few terms are obsolete or reflect chromatin regulation, the prevailing pattern is receptor-driven signaling linked to developmental programs, justifying a label that captures both signaling and developmental regulation.","confidence":"Medium","size":13,"edges":17,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0035948","count":3},{"id":"GO:1903709","count":3},{"id":"GO:0060765","count":3},{"id":"GO:0097676","count":3}]},{"hash":"1563809652864702665","title":"Skeletal Mineralization and Bone Development","description":"The top GO terms point to bone formation and mineralization (endochondral ossification, cementum mineralization) and vitamin D response as core functions, with skin development and mitotic spindle terms playing a secondary role.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0001958","count":2}]},{"hash":"1167219105567358515","title":"Neuronal morphogenesis and mitochondrial dynamics","description":"This cluster shows enrichment for CNS neuron development, dendrite morphogenesis, axon extension, and intracellular distribution of mitochondria, along with cytoskeletal dynamics (microtubule sliding) and calcium signaling, suggesting a cohesive theme around neuronal development and structural remodeling involving mitochondria and the cytoskeleton.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051012","count":3},{"id":"GO:0090258","count":3},{"id":"GO:0032930","count":3},{"id":"GO:1901216","count":3},{"id":"GO:0045773","count":3}]},{"hash":"813000453353469081","title":"Spinal Motor Neuron and Interneuron Development","description":"The set is dominated by terms related to neural development in the spinal cord, especially motor neuron differentiation, interneuron specification, and axon guidance. Some terms also point to cerebellar precursor signaling and organ morphogenesis, but the strongest pattern is spinal cord motor neuron lineage specification, supporting a cohesive motor neuron development module.","confidence":"High","size":13,"edges":52,"triangles":95,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021521","count":7},{"id":"GO:0008585","count":6},{"id":"GO:0035852","count":6},{"id":"GO:0021526","count":6},{"id":"GO:0021524","count":6}]},{"hash":"1068333266680439784","title":"Neuronal axonal transport and cytoskeletal dynamics","description":"The cluster is dominated by terms related to axonal transport (retrograde axonal transport; axonal transport of mitochondrion) and cytoskeletal organization (neurofilament bundle assembly; keratinization), with supporting signals from chaperone-mediated autophagy regulation. While skin barrier terms are present, the strongest cohesion lies in neuronal transport and cytoskeletal dynamics, with autophagy-related regulation as a complementary aspect of cellular quality control.","confidence":"Medium","size":13,"edges":17,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1904714","count":10},{"id":"GO:0061436","count":10},{"id":"GO:0048936","count":10},{"id":"GO:0035105","count":10},{"id":"GO:0031424","count":10}]},{"hash":"1467182957523236697","title":"Neural development and progenitor proliferation","description":"The cluster is dominated by terms related to nervous system development and neurogenesis, including positive regulation of cell population proliferation and CNS development, with supporting signals from neuronal excitability (voltage-gated sodium channel clustering), angiogenesis, hypoxia response, and insulin signaling, all of which can be involved in neural growth and maturation. Some terms like vagina development appear as noise rather than core features. Overall, the group seems to reflect neural development and progenitor growth.","confidence":"Medium","size":13,"edges":29,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0022008","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0060068","count":5},{"id":"GO:0045162","count":5}]},{"hash":"1642215779711496864","title":"Photoreceptor GPCR Signaling","description":"Dominated by terms linking retina development and G protein-coupled receptor signaling, especially opsin-mediated signaling and adenosine receptor pathways, pointing to photoreceptor/retina-associated GPCR signaling as the core theme. Some sensory-related GPCR terms (pain, temperature) appear but are secondary to the retina/opsin signaling focus.","confidence":"Medium","size":13,"edges":11,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0035645","count":10}]},{"hash":"1391453386587244854","title":"Transmembrane Transporters","description":"The cluster is dominated by multiple transmembrane transport GO terms (sugar, ion, phosphate, xenobiotic transport) and a vesicle-related transport term (neurotransmitter loading), suggesting proteins functioning primarily as transporters or associated with membrane transport processes. Some terms about cytoskeleton or cell cycle appear, but the strongest common theme is membrane transport activities.","confidence":"Medium","size":13,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0060316","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1904659","count":2}]},{"hash":"1456781446529954444","title":"Diverse sugar catabolism","description":"The top GO terms point to multiple sugar catabolic pathways (D-xylose, L-arabinose, L-fucose, rhamnose, D-gluconate, glycerol-3-phosphate biosynthesis) and carbohydrate phosphorylation, suggesting a cluster focused on sugar degradation and carbohydrate metabolism. A few RNA modification terms are present but they do not define the primary function of the group. Confidence: Medium","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":5},{"id":"GO:0036265","count":4},{"id":"GO:0006370","count":4},{"id":"GO:0005998","count":4},{"id":"GO:0019521","count":4}]},{"hash":"1283583153579835914","title":"Nervous system development and synapse assembly","description":"The top GO terms are dominated by nervous system development (GO:0007399), synapse assembly (GO:0007416), neuron cell-cell adhesion (GO:0007158), and calcium-dependent adhesion (GO:0016339), which together point to neural connectivity and maturation. While there are also skin-related terms (keratinization, hair orientation) in the mix, the strongest emphasis is on neural development and synaptic organization, making this label the most representative for the cluster.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032773","count":13},{"id":"GO:0007399","count":13},{"id":"GO:0016339","count":13},{"id":"GO:0051965","count":13},{"id":"GO:1903142","count":13}]},{"hash":"838423908129424857","title":"Antigen processing and phagocytosis in immunity","description":"The top terms cluster around processing exogenous peptides for MHC class I, phagocytosis, receptor internalization, and regulation of hypersensitivity, pointing to antigen handling and uptake in immune responses. A few terms touch neuronal junctions and host\u2013symbiont entry, but the dominant theme is antigen processing and phagocytic pathways in immunity.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001798","count":4},{"id":"GO:0042590","count":4},{"id":"GO:0006911","count":4},{"id":"GO:0001812","count":4},{"id":"GO:0001805","count":4}]},{"hash":"1950895539276064200","title":"BMP signaling in vascular development","description":"The top GO terms point to BMP signaling with concurrent pro-growth/PI3K-AKT signaling, plus processes tied to blood vessel morphogenesis, endothelial cell chemotaxis, and neural crest\u2013related migratory events. Together these suggest a cluster of proteins involved in vascular development and angiogenesis, driven by BMP cues and growth signaling pathways. A few terms (e.g., photoreceptor differentiation, heparin response) may be broader or pleiotropic, but the central theme is BMP-regulated vascular development.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030509","count":4},{"id":"GO:0051897","count":4},{"id":"GO:1902262","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0045662","count":3}]},{"hash":"2102322333905970051","title":"Motor neuron differentiation and migration","description":"Most terms point to motor neuron development and specification (visceral motor neuron differentiation, medial/lateral motor column differentiation, spinal cord motor neuron cell fate specification, forebrain regionalization), with additional mentions of actin filament bundle assembly and transcription as supporting cellular processes; a couple of terms (phloem development, metanephric vesicle morphogenesis) are unrelated to neurons and may reflect broader developmental annotations, but the dominant pattern is motor neuron differentiation and migration.","confidence":"High","size":13,"edges":20,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021524","count":12},{"id":"GO:0021526","count":12},{"id":"GO:0010088","count":12},{"id":"GO:0021520","count":12},{"id":"GO:0072283","count":12}]},{"hash":"2156413521967992786","title":"Neuronal synaptic vesicle exocytosis and plasticity","description":"This cluster is dominated by GO terms describing presynaptic vesicle fusion and calcium-regulated neurotransmitter release (SNARE complex assembly, vesicle fusion, calcium-dependent exocytosis) and postsynaptic receptor trafficking (insertion and internalization) as well as regulation of short-term synaptic plasticity, pointing to core synaptic transmission and plasticity mechanisms. Some membrane transport terms are present but do not override the central synaptic theme.","confidence":"High","size":13,"edges":14,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035493","count":4},{"id":"GO:0098967","count":4},{"id":"GO:0031629","count":4},{"id":"GO:0048791","count":4}]},{"hash":"202638042194852781","title":"Ribosome biogenesis and translation","description":"Top GO terms are dominated by translation- and ribosome-related processes, including translation, cytoplasmic translation, and ribosomal small subunit biogenesis. The presence of tRNA modification also supports translation fidelity. Auxiliary terms like cell cycle and cell division may reflect broader growth coordination, and iron ion transport appears less central. Overall, the cluster seems centered on ribosome assembly and protein synthesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006400","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0015684","count":2}]},{"hash":"1471226002256559374","title":"Steroid and xenobiotic metabolism","description":"The cluster is enriched for metabolic and catabolic processes involving steroids (brassinosteroid, aldosterone, calcitriol) and various xenobiotics (carbazole, alkaloids, insecticides), plus responses to environmental ions. This indicates a detoxification/hormone-metabolism theme best captured by the suggested name.","confidence":"Medium","size":13,"edges":11,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010268","count":9},{"id":"GO:0019341","count":9},{"id":"GO:0010164","count":9},{"id":"GO:0017143","count":9},{"id":"GO:0008585","count":9}]},{"hash":"773338371952902606","title":"Thermoreception and Pain GPCR Signaling","description":"Top terms cluster around temperature-related sensory signaling (sensory perception of pain, cellular response to temperature stimulus, diet-induced thermogenesis) and GPCR signaling (opsin signaling, PLC activity, adenylate cyclase-activating GPCR pathway), with related membrane potential regulation and secretion/differentiation terms. This points to thermosensory and nociceptive signaling governed by GPCR pathways, common in autonomic and sensory tissues.","confidence":"High","size":13,"edges":8,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0042391","count":8},{"id":"GO:0046541","count":8}]},{"hash":"1411246687015470188","title":"Brain and cranial nerve development","description":"The cluster\u2019s GO terms cluster around development of neural and cranial structures\u2014brain regions like the globus pallidus and olfactory bulb, cranial nerves (oculomotor, trochlear), and embryonic cranial skeleton morphogenesis\u2014with some related morphogenetic processes (inner ear, lung). This suggests a cohesive theme of brain and cranial development.","confidence":"High","size":13,"edges":13,"triangles":1,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0021759","count":11},{"id":"GO:0048839","count":7},{"id":"GO:0051260","count":6},{"id":"GO:2000836","count":6}]},{"hash":"1807876344663786439","title":"Embryonic Organogenesis and Patterning","description":"The top GO terms point to embryonic development and tissue morphogenesis, including heart development (endocardial EMT, left ventricular morphogenesis), cartilage formation, placental/trophoblast differentiation, and left-right patterning. These collectively reflect early organogenesis and spatial organization during development, suggesting the cluster groups proteins involved in embryonic morphogenesis and patterning rather than a single pathway. ","confidence":"High","size":13,"edges":13,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2}]},{"hash":"715651171859728678","title":"Rho-GTPase signaling and actin dynamics","description":"The top terms converge on Rho protein signal transduction regulation and GTPase activity, combined with actin cytoskeleton remodeling processes (microspike assembly, actin filament depolymerization) and related signaling like thrombin receptor pathways, suggesting a cohesive function in Rho-GTPase\u2013driven actin dynamics, with brain development and cell division as secondary contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0043547","count":3}]},{"hash":"499689428331168365","title":"Eye and skin morphogenesis with ECM remodeling","description":"The GO terms center on eye and skin development and adhesion, with collagen catabolic activity pointing to extracellular matrix remodeling, and some immune-related complement activation terms suggesting tissue remodeling contexts; together these imply a developmental cluster focused on ocular/dermal morphogenesis and ECM/immune processes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048593","count":4},{"id":"GO:0043589","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0070208","count":4}]},{"hash":"1089056598074909160","title":"Development and Innate Immune Responses","description":"The top terms mix developmental processes (endocardial cushion EMT, organ development, multicellular growth) with innate immune defenses (defense responses to Gram-positive bacteria and virus, innate immune response), plus transcriptional regulation aspects. This suggests a cluster centered on organismal development with concurrent immune signaling and transcriptional control. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0035264","count":3}]},{"hash":"525748895678954589","title":"Multisystem developmental morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues: craniofacial formation (roof of mouth, odontogenesis), neural crest migration, heart morphogenesis (endocardial cushion), left-right asymmetry in the brain, ureteric bud branching, adipocyte and myoblast differentiation, and general transcriptional regulation, indicating proteins involved in broad morphogenesis rather than a single tissue.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060021","count":5},{"id":"GO:0045662","count":4},{"id":"GO:0042475","count":4},{"id":"GO:0001755","count":4}]},{"hash":"2206931566907080518","title":"DNA Damage Repair and Response","description":"The top GO terms point to base-excision repair, nucleotide-excision repair, and UV-damage excision repair, plus an intrinsic apoptotic response to DNA damage, indicating a cluster centered on DNA repair and damage signaling. While several development-related terms appear, they likely reflect pleiotropic roles rather than a cohesive developmental module, with the dominant signal being DNA repair and damage-induced apoptosis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":5},{"id":"GO:1901255","count":5},{"id":"GO:0070914","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0009636","count":5}]},{"hash":"1636941208180719101","title":"GPCR-Driven Inflammatory Signaling and Vascular Permeability","description":"This cluster centers on GPCR-mediated signaling, particularly adenosine receptor pathways, and links to inflammatory responses (neutrophil chemotaxis and killing) and regulation of vascular permeability and cytokine production, suggesting a coherent theme of GPCR-driven inflammation affecting endothelial function. While one term mentions enteric smooth muscle differentiation, the dominant signal is GPCR-inflammation-vascular permeability.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":5},{"id":"GO:1903141","count":5},{"id":"GO:0016056","count":5},{"id":"GO:0007202","count":5},{"id":"GO:0010579","count":5}]},{"hash":"1097654667387570598","title":"Ubiquitin-Dependent Degradation and Immune Signaling","description":"The cluster is dominated by GO terms tied to ubiquitin-mediated proteolysis and ubiquitination (polyubiquitination, ubiquitin-dependent protein catabolic process), with related signaling and immune functions such as NF-kappaB activation, defense against virus, and V(D)J recombination; additional terms on receptor turnover and chromatin-related catabolic processes fit under the umbrella of ubiquitin-regulated protein turnover affecting signaling and chromatin dynamics.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0007250","count":5},{"id":"GO:0033151","count":5},{"id":"GO:0085020","count":5},{"id":"GO:0038018","count":5}]},{"hash":"3631103621383454","title":"Embryogenesis and tissue morphogenesis","description":"This cluster\u2019s top GO terms cluster around embryonic development and tissue patterning\u2014pancreatic cell development, left/right pattern formation, placental/trophoblast differentiation, cartilage morphogenesis, EMT in endocardial cushion formation, and endocrine system development\u2014pointing to a common theme of embryogenesis and organogenesis. A few terms refer to general cellular processes (aggrosome assembly, transcriptional regulation, chaperone-mediated assembly) that are broadly relevant but do not negate the developmental emphasis. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060536","count":6}]},{"hash":"1002738468179189275","title":"Neuronal Synaptic Transmission and Plasticity","description":"This cluster is dominated by GO terms related to neuronal signaling and synaptic plasticity, including neurotransmitter secretion, regulation of neuronal synaptic plasticity, and long-term potentiation, with supporting links to actin crosslinking that underpins synaptic structure. While insulin response and hypoxia are also represented, the strongest, recurring theme is neuronal synaptic transmission and plasticity.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060316","count":3}]},{"hash":"2001019414364409667","title":"Neurodevelopment and GABA metabolism","description":"The cluster is dominated by nervous-system related terms: neural tube development, neuromuscular process controlling balance, and proximal/distal pattern formation, suggesting roles in CNS patterning and motor control. Added GABA catabolic process and retinal metabolic process point to neurotransmitter handling and visual-system metabolism, while ethanol catabolic and acetate biosynthetic processes reflect broader energy metabolism linked to neural tissues. Some developmental terms like pancreas development appear as broad developmental signals, but the core theme centers on neurodevelopment and GABA-related metabolism.","confidence":"Medium","size":12,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":10},{"id":"GO:0042574","count":10},{"id":"GO:0009450","count":10},{"id":"GO:0010133","count":10},{"id":"GO:0019545","count":10}]},{"hash":"542841082704993514","title":"Neurodevelopment and Synapse Assembly","description":"The terms cluster around nervous system development, neurogenesis, corpus callosum development, synapse assembly, and axon guidance pathways (ROBO, SHH). The clustering of voltage-gated potassium channels also fits neuronal connectivity, supporting a neural development theme, though a single outlier term about striated muscle myosin assembly is present. Overall, the cluster represents neural development and synaptic organization.","confidence":"High","size":12,"edges":40,"triangles":56,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0071688","count":6},{"id":"GO:0001822","count":6},{"id":"GO:0045163","count":6},{"id":"GO:0022038","count":6}]},{"hash":"1359634830341225246","title":"Plant chromatin modification and cohesion","description":"The top GO terms are dominated by chromatin-related processes: subtelomeric heterochromatin formation, histone H4 acetylation, peptidyl-lysine N6-acetylation, and mitotic sister chromatid cohesion. This points to a core theme of epigenetic regulation and chromosome dynamics in plants, with a developmental hint from leaf formation regulation. Other metabolic terms are supplementary. Confidence: High.","confidence":"","size":12,"edges":12,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":5},{"id":"GO:2000025","count":4},{"id":"GO:0018003","count":4},{"id":"GO:0006044","count":4},{"id":"GO:0043967","count":4}]},{"hash":"191395037259631244","title":"Mitotic Cell Cycle and DNA Replication","description":"The dominant GO terms are related to mitosis and DNA replication (mitotic cell cycle, DNA replication, mitotic G1 DNA damage checkpoint signaling, negative regulation of cell population proliferation). This suggests the cluster centers on cell cycle regulation and replication. Some terms (visual perception, T cell receptor signaling, cadmium response, and Wnt signaling regulation) appear as outliers or reflect broader signaling roles in the proteins, but the core theme is cell cycle control and DNA synthesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051436","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0031571","count":7},{"id":"GO:0000278","count":7}]},{"hash":"1464754047760843428","title":"Nuclear gene expression and DNA replication","description":"The cluster shows strong signals for DNA replication and RNA-centric regulation (splicing via spliceosome and ncRNA-mediated gene silencing), indicating a core nuclear program coordinating genome maintenance with gene expression. Additional terms touch on protein targeting, kinase regulation, and redox/homeostasis\u2014likely ancillary but not contradicting the central nuclear theme. Overall, a label centered on nuclear gene expression and DNA replication captures the shared biology.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0097428","count":5},{"id":"GO:0046825","count":5}]},{"hash":"427899225308821231","title":"DNA replication and RNA methylation cluster","description":"The top GO terms cluster around DNA replication, DNA unwinding, recombination, and the SOS response, with additional emphasis on RNA methylation (tRNA and rRNA). There are a few related terms (cobalamin biosynthesis) that can tie into methylation chemistry, supporting a broader nucleic-acid metabolism theme. Overall, this cluster seems to group proteins involved in genome maintenance and RNA modification.","confidence":"High","size":12,"edges":43,"triangles":66,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0009236","count":6},{"id":"GO:0030488","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0009432","count":4}]},{"hash":"1997874574913179409","title":"Quinone biosynthesis and lipid metabolism","description":"The terms cluster around quinone biosynthesis (phylloquinone and menaquinone) and lipid-related pathways (fatty acid beta-oxidation, sphinganine biosynthesis), with supporting central carbon and amino acid catabolic processes (oxaloacetate, valine, aspartate). This suggests a metabolism-focused module centered on quinone production and lipid metabolism in microbes, with antibiotic biosynthesis appearing less central.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0010124","count":7},{"id":"GO:0042372","count":7},{"id":"GO:0006635","count":7},{"id":"GO:0009234","count":7}]},{"hash":"400424272824439137","title":"Mitochondrial energy metabolism and transport","description":"The cluster centers on mitochondrial function, with terms describing energy-related processes (malate-aspartate shuttle, mitochondrial ATP transmembrane transport, responses to insulin and fatty acids, nucleotide transport) and mitochondrial dynamics and apoptosis (mitochondrial membrane fission, apoptotic mitochondrial changes). The inclusion of heme transport further ties to mitochondrial roles in biosynthesis, reinforcing a cohesive theme around mitochondria coordinating metabolism, transport, and structural changes.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":5},{"id":"GO:0034198","count":4},{"id":"GO:0008637","count":4},{"id":"GO:0015886","count":4},{"id":"GO:0043490","count":4}]},{"hash":"2023633406256432046","title":"Starch and Glycogen Biosynthesis with Phosphorylation Regulation","description":"The cluster is dominated by starch and glycogen biosynthesis terms and includes phosphorylation/dephosphorylation processes, pointing to carbohydrate metabolism under phosphoregulatory control. The presence of sugar-response terms (sorbitol, sucrose) suggests sugar signaling or osmotic response involvement, with nucleotide metabolism terms appearing secondary.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019252","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0006195","count":3},{"id":"GO:0046085","count":3}]},{"hash":"825871447962435152","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0070262","count":5},{"id":"GO:0051028","count":5},{"id":"GO:0038202","count":5},{"id":"GO:0000480","count":3}]},{"hash":"1388142118049861501","title":"Synaptic Transmission and Plasticity","description":"The top GO terms cluster around neurotransmitter secretion (glutamate and GABA), chemical synaptic transmission, and excitatory postsynaptic potentials, with clear ties to synaptic plasticity (LTP/LTD) and receptor clustering. Additional terms like filopodium assembly suggest synapse formation, while social behavior aligns with neural network function. This combination points to a cohesive theme of synaptic signaling and plasticity.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014047","count":5},{"id":"GO:0007268","count":5},{"id":"GO:0014051","count":5},{"id":"GO:0043113","count":5},{"id":"GO:1900273","count":5}]},{"hash":"2300767669136762570","title":"Embryonic development and osteogenesis signaling","description":"This cluster centers on developmental signaling and differentiation with several GO terms pointing to embryonic patterning (anterior/posterior specification), retinoic acid response, and heart-related signaling, along with osteoblast fate commitment and actin cytoskeleton remodeling (Rho signaling, actin polymerization). The mix suggests a cohesive theme around developmental pathways that guide bone formation and cardiovascular development, with supporting cytoskeletal dynamics. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":10},{"id":"GO:1900026","count":9},{"id":"GO:0060988","count":9},{"id":"GO:0009952","count":9},{"id":"GO:0035023","count":9}]},{"hash":"109132144519629265","title":"Adaptive and Innate Immune Activation and Phagocytosis","description":"The top GO terms span both adaptive (T cell costimulation, B cell receptor signaling and activation) and innate immunity (phagocytosis, complement activation, innate immune response, NK-related interactions, tumor cell detection), indicating a cohesive immune activation and phagocytic function across the cluster.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":6},{"id":"GO:0043031","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0006958","count":6}]},{"hash":"153526590245490278","title":"Neural behavior and signaling","description":"The majority of terms point to behavioral phenotypes (vocalization, exploration, social behavior) and responses related to morphine signaling, plus general signaling actions like GTPase activation and centrosome-related localization, suggesting neural signaling involvement; a couple of terms (DNA replication, bile acid secretion) are less connected and introduce non-behavioral biology. Overall the cluster centers on behavioral responses and signaling.","confidence":"Medium","size":12,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0060244","count":2},{"id":"GO:0032782","count":2},{"id":"GO:0071315","count":2}]},{"hash":"564293980893879527","title":"Wnt/Hippo growth signaling and angiogenesis","description":"The top GO terms cluster around growth and differentiation signaling networks, especially Wnt and Hippo pathways, with roles in angiogenesis and keratinocyte differentiation, plus related MAPK/JUN activity and apoptosis; a few outliers (meiotic spindle organization, galactose-regulated transcription) exist but do not outweigh the central theme of proliferative/differentiation signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000187","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0007258","count":10},{"id":"GO:0001525","count":10},{"id":"GO:0030216","count":10}]},{"hash":"1808266127898663319","title":"Secretory Pathway Vesicle Trafficking","description":"Based on the GO terms, the cluster centers on vesicle transport and fusion along the secretory pathway (ER to ERGIC to Golgi) and general protein transport, with supporting signals of immune cell degranulation and histamine release that also depend on secretory vesicles. This points to a cohesive theme of vesicle trafficking in the secretory pathway, rather than a single receptor or enzyme function.","confidence":"Medium","size":12,"edges":21,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":2},{"id":"GO:2001046","count":2},{"id":"GO:0043320","count":2},{"id":"GO:1990668","count":2},{"id":"GO:0006891","count":2}]},{"hash":"907151169396777823","title":"Dopaminergic Signaling and Nicotine Response","description":"This cluster is dominated by GO terms involving dopaminergic synaptic transmission, regulation of dopamine secretion, and behavioral responses to nicotine and cocaine, pointing to a shared function in dopamine-mediated neuronal signaling and drug-induced behavior. Supporting terms like chloride transmembrane transport reflect neuronal excitability, while a Purkinje cell differentiation term hints at neural development but is less central to the dominant theme.","confidence":"Medium","size":12,"edges":12,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":3},{"id":"GO:0032226","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0021702","count":2}]},{"hash":"192050549344905131","title":"Plant organellar gene expression","description":"Based on the GO terms, the cluster centers on organelle-associated processes: import into the mitochondrial matrix, chloroplast mRNA processing, and translation, along with polycistronic mRNA processing and a mitochondrial ubiquinone biosynthesis step. This points to proteins involved in organellar gene expression and biogenesis in plants, spanning both mitochondria and chloroplasts, with some related transport or regulatory roles. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0031426","count":1},{"id":"GO:0048507","count":1},{"id":"GO:0010239","count":1}]},{"hash":"21854179447569116","title":"Unknown","description":"The terms span ribosome biogenesis and RNA processing, immune signaling (NOD2, NF-kappaB) and various developmental processes (left-right patterning, trophoblast differentiation, EMT), with no clear single functional theme and no network connectivity. This suggests the proteins do not form a cohesive, well-defined functional cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0090305","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1369018272965572310","title":"Membrane raft signaling and lipid metabolism","description":"These proteins cluster around membrane-associated signaling and lipid regulation: several terms highlight lipid localization, raft-associated protein localization, SREBP signaling, and PKC signaling; together they suggest roles in organizing membrane microdomains and lipid metabolism that modulate signaling. The dopaminergic synaptic transmission and cell adhesion molecule production terms imply broader roles in neuronal and immune signaling at the membrane. A few older or broader terms are present but do not override the core theme.","confidence":"Medium","size":12,"edges":19,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":3},{"id":"GO:1901585","count":2},{"id":"GO:0060355","count":2},{"id":"GO:0010876","count":2},{"id":"GO:1903905","count":2}]},{"hash":"616601990670394317","title":"Mitochondrial Translation and Respiration","description":"The top GO terms are dominated by mitochondrial tRNA aminoacylation (gly, pro, ser, thr) and the respiratory electron transport chain, indicating proteins involved in mitochondrial protein synthesis and oxidative phosphorylation. While there is a mention of cytoplasmic translation and other peripheral processes, the strongest signal ties to mitochondrial translation machinery and energy production. This makes \"Mitochondrial Translation and Respiration\" a concise, representative label for the cluster.","confidence":"High","size":12,"edges":18,"triangles":6,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0022904","count":4},{"id":"GO:0070150","count":3},{"id":"GO:0006433","count":3},{"id":"GO:0070158","count":3},{"id":"GO:1903833","count":3}]},{"hash":"92659093823786859","title":"Developmental differentiation and gene regulation","description":"This cluster's top GO terms cluster around developmental processes (myotube differentiation, antennal joint development, development of primary female sexual characteristics) and regulation of transcription and DNA binding, plus cell cycle/DNA replication regulation and apoptotic signaling. Although the terms span multiple tissues and contexts, the common theme is developmental timing and fate decisions governed by transcriptional control, consistent with a cluster of proteins involved in differentiation and growth regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014902","count":5},{"id":"GO:0021936","count":4},{"id":"GO:1902043","count":4},{"id":"GO:0001967","count":4},{"id":"GO:0045668","count":4}]},{"hash":"1213690530942181229","title":"Neural Development and Sensory Perception","description":"These proteins are enriched for neural and sensory functions: brain development, forebrain proliferation, visual perception, and taste perception. While there are also terms related to insulin secretion and adipocyte differentiation, the strongest signals point to neural development and sensory processing as the core theme of this cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0050872","count":2},{"id":"GO:0050909","count":2},{"id":"GO:0008284","count":2}]},{"hash":"2294460063056484793","title":"Unknown","description":"The top GO terms span several unrelated areas (cell cycle, pain and sensory responses, electrical signaling in cardiac tissue, GPCR signaling, cold response, vitamin D response, mechanical pain detection, insulin/glucose regulation, and myeloid apoptosis), with no single unifying function or pathway emerging to tie the proteins together. Because there isn\u2019t a coherent, common theme, a specific, descriptive cluster label cannot be confidently assigned.","confidence":"","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":11},{"id":"GO:0048265","count":11},{"id":"GO:0010650","count":11},{"id":"GO:0007205","count":11},{"id":"GO:0009409","count":11}]},{"hash":"1004105568414408489","title":"Innate Immune Signaling and Inflammation","description":"This cluster is dominated by GO terms related to innate immunity and inflammatory signaling (innate immune response, inflammatory response, Toll-like receptor signaling, Toll signaling, and NF-kappaB pathways). Some developmental terms (bone development, morphogenesis, otolith morphogenesis) appear but likely reflect broader or context-specific roles; overall, the core theme is innate immune signaling and inflammation.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0090260","count":4}]},{"hash":"2095026731593876245","title":"Spinal motor neuron development and axon guidance","description":"The strongest signals are motor neuron\u2013related: medial/visceral motor neuron differentiation, ventral spinal cord interneuron specification, and motor neuron axon guidance, pointing to a core theme of motor neuron development and wiring. The negative regulation of transcription by RNA polymerase II suggests transcriptional control during differentiation, while other developmental terms are ancillary. Overall, the cluster centers on motor neuron formation and guidance.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0021526","count":6},{"id":"GO:0021524","count":6},{"id":"GO:0021520","count":6},{"id":"GO:0072283","count":6}]},{"hash":"89772266118076001","title":"Ubiquitin-Dependent NF-\u03baB Signaling and Immune Regulation","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis, K6-linked ubiquitination, autoubiquitination) and immune-related activities (activation of NF-kappaB pathway, defense response to virus, V(D)J recombination), with additional links to chromatin regulation (histone catabolic process, dosage compensation). This suggests a cluster centered on ubiquitin-mediated regulation of immune signaling and chromatin dynamics, rather than a single linear function. Some terms (V(D)J recombination, dosage compensation) are more peripheral but still connect to immune development and chromatin context, supporting a cohesive theme around ubiquitin-regulated immune and chromatin processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0007250","count":8},{"id":"GO:0033151","count":8},{"id":"GO:0085020","count":8},{"id":"GO:0090073","count":8}]},{"hash":"218700316667953100","title":"Embryonic development and organ morphogenesis","description":"The GO terms are dominated by embryonic development and tissue morphogenesis themes (pancreas development, heart-related patterning, placental differentiation, cartilage formation, endocrine system development, etc.), with a few general transcription/splicing terms as less central background. This suggests proteins involved in broad developmental and organ-forming processes, justifying this label.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0060806","count":12}]},{"hash":"1452616075014580245","title":"Embryogenesis and organ morphogenesis","description":"These GO terms cluster around embryonic development and tissue differentiation, including endocrine system development, pancreatic cell development, left-right pattern formation, EMT in heart/heart cushion formation, placental/trophoblast differentiation, and cartilage morphogenesis. Together, they point to broad organogenesis and lineage specification during development, with a few unrelated terms (oxidation-reduction and photosynthesis) likely noise. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060707","count":12}]},{"hash":"1710732821175529933","title":"Adrenergic regulation of cardiac contraction and sarcomere organization","description":"This cluster is dominated by GO terms linking heart rate regulation by epinephrine, cardiac muscle contraction, and sarcomere organization, suggesting a cohesive theme around cardiac muscle function and sarcomere assembly with adrenergic modulation. A few terms (spicule insertion, smell, nervous system development) appear peripheral or noisy relative to the main cardiac-focused signals.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003065","count":5},{"id":"GO:1904753","count":5},{"id":"GO:0060048","count":5},{"id":"GO:0060298","count":5},{"id":"GO:1904706","count":5}]},{"hash":"66698755525475778","title":"Cell Cycle and Mitochondrial Fission","description":"The top terms are dominated by cell cycle and cell division, with mitochondrial fission also represented, suggesting a core theme around cell-cycle progression and mitochondrial dynamics. The other terms (pain response, sensory detection, SA node signaling) are less prominent and may reflect pleiotropic roles rather than a single cohesive function. This makes the label a reasonable reflection of the cluster\u2019s primary function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0010650","count":2}]},{"hash":"1407296199091134479","title":"RNA Pol II Transcription Regulation in Development","description":"The cluster is dominated by terms related to regulation of RNA polymerase II transcription (including transcription preinitiation complex assembly and negative regulation) and development, with a hint of light-responsive growth (photomorphogenesis). These themes point to a set of transcriptional regulators that connect gene regulation to developmental processes.","confidence":"High","size":11,"edges":15,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007275","count":3},{"id":"GO:1900446","count":2},{"id":"GO:2000306","count":2}]},{"hash":"1763442668454520810","title":"TLR-driven innate immune signaling","description":"This cluster is dominated by GO terms for Toll-like receptor signaling (TLR1, TLR7, TLR8), detection of bacterial components (LPS and triacyl lipoproteptides), and downstream inflammatory processes (NF-kappaB signaling, IL-18 production), plus a cellular response related to chloroquine. These together point to a cohesive role in innate immune sensing of bacteria and initiation of inflammation. Some development terms appear but are likely secondary annotations; the central theme is TLR-mediated bacterial detection and signaling.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0032474","count":4},{"id":"GO:0034130","count":4},{"id":"GO:0042346","count":4},{"id":"GO:0032497","count":4}]},{"hash":"1743726188820798864","title":"Fungal cell wall synthesis and mating","description":"This cluster shows strong representation of fungal-specific processes, notably fungal-type beta-glucan biosynthesis (cell wall formation) and karyogamy (mating), suggesting a program focused on fungal cell wall assembly and mating. Supporting signals include membrane-targeting and growth-related processes, plus iron-sulfur cluster assembly and oxidative stress responses, which align with metabolic readiness during growth and stress management in fungi. Overall, the terms point to a fungal cell wall/mating\u2013related cluster with associated growth and stress features.","confidence":"Medium","size":11,"edges":28,"triangles":39,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0090084","count":7},{"id":"GO:1900035","count":7},{"id":"GO:0006880","count":7}]},{"hash":"1439776527888878129","title":"Cytoskeleton dynamics and Golgi vesicle transport","description":"This cluster centers on cytoskeleton remodeling (Rac signaling, actin filament reorganization, spine development) and membrane trafficking (COPI-coated Golgi vesicles, endosome-to-lysosome transport, mitotic cleavage furrow ingression), pointing to a cohesive theme of actin/cytoskeleton-driven vesicle transport and cell division processes.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035021","count":10},{"id":"GO:0055108","count":10},{"id":"GO:0033601","count":10},{"id":"GO:0061000","count":10},{"id":"GO:0030037","count":10}]},{"hash":"678449935766687354","title":"Actin nucleation in neural development","description":"This cluster is driven by strong signals for actin nucleation and Arp2/3-mediated actin assembly, along with neural development processes such as neural tube closure and multicellular organism development. While there are also terms related to cell cycle and ubiquitin-proteasome\u2013dependent protein turnover, the dominant theme centers on actin cytoskeleton remodeling essential for neural development. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":3},{"id":"GO:0007275","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0051301","count":2}]},{"hash":"1840649113608734741","title":"Core Metabolism and Biosynthetic Pathways","description":"The cluster shows enrichment for central carbon metabolism terms (TCA cycle, glycolysis) along with lipid biosynthesis (fatty acid and malonyl-CoA biosynthesis) and related biosynthetic processes (menaquinone, antibiotic biosynthesis), plus some catabolic routes. This pattern points to a cohesive group of proteins involved in core metabolism and associated biosynthetic pathways rather than a single, narrow function.","confidence":"High","size":11,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0042759","count":3},{"id":"GO:2001295","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0006096","count":3}]},{"hash":"1069417818011219230","title":"Embryonic morphogenesis and axis specification","description":"This cluster shows strong enrichment for developmental and morphogenesis processes across multiple tissues: neural tube closure, forebrain and inner ear morphogenesis, left/right axis specification, multicellular organism development, and various organ-specific morphogenesis terms (e.g., prostate gland morphogenesis). The inclusion of regulation of Hedgehog signaling (Smoothened pathway) further supports a role in developmental patterning and signaling. Overall, these proteins appear linked by embryonic development and morphogenesis functions.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0060218","count":2},{"id":"GO:0002053","count":2},{"id":"GO:0070986","count":2},{"id":"GO:0006355","count":2}]},{"hash":"1572329237888474852","title":"Neural and mesodermal differentiation","description":"The top GO terms point to differentiation and development across multiple lineages, notably neural components (GABAergic neurons, astrocytes, amacrine cells, auditory receptor cells) and mesodermal derivatives (skeletal muscle, heart/ventricle, paraxial mesoderm, adrenal chromaffin cells), with additional lineage involvement like mast cell migration. This suggests a broad theme of developmental differentiation spanning neural and mesodermal lineages rather than a single pathway.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0097531","count":11},{"id":"GO:0021858","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0003218","count":11},{"id":"GO:0048342","count":11}]},{"hash":"1540198157936198998","title":"Multi-lineage cell differentiation","description":"The terms show differentiation across nervous system, muscle, adrenal chromaffin, and other lineages, indicating a broad developmental program rather than a single tissue-specific function.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0097531","count":11},{"id":"GO:0021858","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0003218","count":11},{"id":"GO:0048342","count":11}]},{"hash":"1645242691760141598","title":"NF-kappaB\u2013driven antibacterial innate immunity","description":"Contains GO terms for defense against both Gram-positive and Gram-negative bacteria, antibacterial humoral response, and innate mucosal immunity, anchored by positive regulation of canonical NF-kappaB signaling. Together these imply an innate immune cluster focused on antibacterial defense and inflammatory signaling; a few obsolete or tangential terms are present but do not override the core theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0019731","count":2}]},{"hash":"2082903875064558715","title":"Neural and Sensory Organ Development","description":"The top GO terms cluster around neural development and sensory organ morphogenesis, with multiple items on CNS projection neuron axonogenesis, optic nerve morphogenesis, corpus callosum development, and compound eye photoreceptor differentiation. Some outliers (apoptotic clearance, LPS response, potassium channel clustering, vaginal and heart development) appear less central and could reflect broader annotations, but the dominant signal is neural/sensory development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060068","count":10},{"id":"GO:0043277","count":9},{"id":"GO:0021952","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0071222","count":9}]},{"hash":"1235736128357610876","title":"Neural and Immune Signaling Regulators","description":"This cluster combines neural development terms (axon extension/guidance and retinal ganglion cell axon guidance) with innate immune signaling (Toll-like receptor signaling, NF-kappaB pathways) and general regulation of signaling processes (protein kinase activity, receptor internalization, cytokine production). The proteins likely function as regulators of signaling across neural development and immune pathways, rather than a single cohesive pathway, justifying a label centered on signaling regulation in neural and immune contexts.","confidence":"Medium","size":11,"edges":27,"triangles":25,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":7},{"id":"GO:0006469","count":7},{"id":"GO:0090260","count":5},{"id":"GO:0072287","count":5},{"id":"GO:0032474","count":5}]},{"hash":"1280942751968392159","title":"Neural Signaling and Sensory Perception with Drug Response","description":"The proteins cluster around neuronal signaling and sensory processing: multiple GO terms for pain and visual perception, visual learning, and dopaminergic synaptic transmission, along with ERK signaling and protein phosphorylation. The inclusion of cocaine-related behavioral response and prostaglandin stimulus further supports a neural signaling and sensory-response theme centered on dopaminergic pathways. Some cardiogenesis and macrophage chemotaxis terms are present but appear less central to the cluster\u2019s main function.","confidence":"High","size":11,"edges":28,"triangles":31,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0006468","count":4}]},{"hash":"1885242349837511436","title":"Transcriptional Regulation and RNA Processing","description":"This cluster centers on GO terms tied to nuclear gene expression: DNA-templated transcription, negative regulation of transcription by RNA polymerase II, nucleosome assembly, and spliceosomal snRNP/spliceosome assembly. These indicate core transcriptional control and RNA processing mechanisms. Some terms like heart development or filopodium assembly may reflect broader or incidental annotations, but the dominant theme is transcription regulation and RNA processing.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0046847","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006334","count":2}]},{"hash":"834033468061114259","title":"Potassium Transport and Muscle Membrane Potential Regulation","description":"This cluster is dominated by potassium import/export and intracellular potassium homeostasis, plus membrane potential stabilization and T-tubule organization\u2014core elements of muscle excitability in skeletal and cardiac tissue. Additional terms on skeletal muscle relaxation and regulation of heart contraction support a broader role in electrolyte balance and muscle function, with potassium managing excitability.","confidence":"High","size":11,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990573","count":7},{"id":"GO:0030007","count":6},{"id":"GO:0097623","count":6},{"id":"GO:0090076","count":5},{"id":"GO:0030322","count":5}]},{"hash":"1092219139894898990","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"The cluster is dominated by GO terms related to ubiquitin-dependent proteasomal degradation (SCF-dependent ubiquitination, K11/K48/K6 linkages, autoubiquitination) and cell-cycle events (G2/M transition, mitotic cell cycle, cell division). While embryonic development and viral processes appear, the strongest signal is ubiquitin-mediated proteolysis tied to mitosis, suggesting a coherent theme of regulated protein turnover during cell division.","confidence":"High","size":11,"edges":42,"triangles":78,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0070979","count":8},{"id":"GO:0001701","count":7},{"id":"GO:0000086","count":7},{"id":"GO:0000278","count":7}]},{"hash":"2090568385119322547","title":"Cartilage and Skeletal Development with ECM Organization","description":"This cluster is driven by GO terms for cartilage condensation, skeletal system development, and collagen fibril organization, with supportive signals from fibroblast growth factor response and cell adhesion, indicating roles in cartilage/bone morphogenesis and extracellular matrix remodeling. A hippocampus development term is present but likely secondary to the dominant skeletogenic/ECM theme; overall, the label captures the core function of the cluster.","confidence":"High","size":11,"edges":12,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":8},{"id":"GO:1901492","count":8},{"id":"GO:0043154","count":7},{"id":"GO:1902166","count":7},{"id":"GO:0034116","count":7}]},{"hash":"1182735564113043039","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0034720","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0006685","count":2},{"id":"GO:0030194","count":2}]},{"hash":"1119377602618162101","title":"Transcriptional Regulation and Chromatin Modification","description":"The cluster\u2019s GO terms cluster around DNA-templated transcription, histone acetylation (chromatin modification), and ubiquitin-related regulation (polyubiquitination and ERAD), suggesting a core nuclear program of gene expression control and protein turnover. The presence of T cell\u2013related terms and developmental annotations is less central to the shared theme.","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0043982","count":3}]},{"hash":"297569273738609758","title":"Developmental transcription regulation and chromatin remodeling","description":"This cluster centers on DNA-templated transcription and regulation of transcription by RNA polymerase II, along with chromatin-related processes such as nucleosome assembly and histone modification (H2A ubiquitination). Coupled with GO terms for dorsal/ventral axis specification and multiple organ morphogenesis (heart-related developments and palate formation), it suggests a cohesive role in regulating gene expression during developmental patterning and tissue formation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0008069","count":2},{"id":"GO:2000791","count":2},{"id":"GO:0006334","count":2}]},{"hash":"826504563946834100","title":"Immune and Cardiac Development Signals","description":"The top GO terms show a strong emphasis on immune processes (innate and adaptive responses, T cell proliferation) alongside heart/vascular development (heart development, smooth muscle differentiation). While other terms touch on general signaling or transport, the dominant themes connect immune activation with cardiovascular development, supporting this label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010863","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1905065","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0007507","count":2}]},{"hash":"591604111263576065","title":"DNA-Templated Transcription Regulation and Stress Response","description":"The cluster is dominated by transcription-related GO terms (DNA-templated transcription and regulation of DNA binding), suggesting a core function in transcriptional control. Several additional terms indicate cellular stress responses (unfolded protein response, aggresome assembly) and responses to xenobiotics (including cocaine), pointing to a broader regulatory program that links transcription control with stress signaling. Developmental terms appear less centrally connected but may reflect context-specific transcriptional regulation in differentiation processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0043388","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0042220","count":2}]},{"hash":"1102597312095516306","title":"Steroid hormone biosynthesis and xenobiotic detoxification","description":"These proteins show GO terms tied to steroid-related biosynthesis (prostaglandin, aldosterone, brassinosteroid, vitamin D) alongside a range of xenobiotic and alkaloid/dioxin catabolic processes and insecticide metabolism. The common thread seems to be metabolism of lipophilic signaling lipids (steroids, prostaglandins) and detoxification of xenobiotics, suggesting a broad role in lipid hormone handling and detox pathways. ","confidence":"Medium","size":11,"edges":18,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":11},{"id":"GO:0010268","count":10},{"id":"GO:0019341","count":10},{"id":"GO:0010164","count":10},{"id":"GO:0017143","count":10}]},{"hash":"1907695804310562104","title":"Ubiquitin-dependent proteolysis and deubiquitination","description":"Dominant GO terms point to ubiquitin-dependent protein catabolic processes and deubiquitination (K48-linked and linear), plus ubiquitin recycling, suggesting the cluster centers on ubiquitin turnover and protein degradation. Other terms like spliceosome assembly and chromatin binding regulation may reflect broader regulatory links, but the ubiquitin-related activity clearly dominates.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0071108","count":3},{"id":"GO:0035562","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0051764","count":3}]},{"hash":"77515705122566354","title":"Ribosome Biogenesis and Translation","description":"Based on the top GO terms, the cluster is enriched for ribosome-related processes: cytoplasmic translation, ribosome biogenesis, small and large subunit biogenesis/export, and tRNA modification. Additional terms about cell division and septum assembly likely reflect coordinated growth/division programs, but the dominant theme is ribosome assembly and protein synthesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0000747","count":4},{"id":"GO:1903833","count":4},{"id":"GO:0002181","count":4}]},{"hash":"728611599727785917","title":"Insect cuticle and muscle development","description":"Based on the top GO terms, the cluster prominently includes adult chitin-based cuticle development and sarcomere organization, pointing to roles in insect cuticle formation and muscle fiber organization. While other terms imply broader signaling and metabolism, the strongest shared theme across members appears to be developmental processes governing the exoskeleton and muscle structure in arthropods. Overall, the label reflects a cohesive functional theme with moderate confidence due to some noisy or broader terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043950","count":4},{"id":"GO:0050774","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0051591","count":4},{"id":"GO:0043547","count":3}]},{"hash":"1532778418221564602","title":"Developmental signaling and morphogenesis","description":"This cluster is dominated by GO terms tied to developmental processes across neural and organ systems, including nervous system development, hair follicle morphogenesis, gland formation, and regulation of signaling pathways (ERK and Wnt) that drive cell proliferation and tissue morphogenesis. The common theme is developmental signaling guiding organ and tissue formation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0060501","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0031069","count":4}]},{"hash":"179448013276715747","title":"Chromatin Assembly and Heterochromatin Formation","description":"This cluster is dominated by GO terms related to chromatin organization and transcription regulation, including DNA replication-dependent chromatin assembly, transcription initiation-coupled remodeling, and heterochromatin formation (rDNA and pericentric). The presence of spermatogenesis and sperm DNA condensation terms suggests chromatin dynamics in germ cells as well, though a few terms (e.g., cardiac atrium morphogenesis) appear ancillary. Overall, the core theme is chromatin assembly/remodeling and heterochromatin control.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006335","count":10},{"id":"GO:0051290","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0045815","count":10},{"id":"GO:0000183","count":10}]},{"hash":"739021545758909385","title":"Embryonic heart and muscle development signaling","description":"The top GO terms cluster around heart development and cardiac muscle contraction, with supporting signals in embryonic patterning (anterior/posterior pattern specification), and regulatory cues in GTPase/Rac signaling and cell adhesion. This suggests a coherent functional theme centered on cardiac development and associated muscle function, with broader involvement in developmental signaling and cytoskeletal dynamics.","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007205","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0043547","count":3}]},{"hash":"2175013706500663193","title":"Unknown","description":"The top GO terms cover meiotic regulation, ER-stress\u2013induced apoptosis, lipid signaling, pigmentation, DNA damage response, microtubule severing, multicellular development, skeletal morphogenesis, protein autophosphorylation, and ubiquitination. This spread lacks a cohesive, single functional theme tying all proteins together, so a unified label isn\u2019t supported.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0040020","count":8},{"id":"GO:0070059","count":8},{"id":"GO:0032933","count":8},{"id":"GO:0043473","count":8},{"id":"GO:0072432","count":8}]},{"hash":"1541501203730530530","title":"Ubiquitination-Driven Growth and Immune Regulation","description":"The top GO terms center on ubiquitination and ubiquitin-dependent proteolysis, including autoubiquitination, with links to regulating apoptosis, cell growth, and growth hormone signaling. Additional terms point to immune response, adipocyte differentiation, and vitamin D signaling, suggesting a cohesive theme where ubiquitin-mediated modification modulates growth, survival, and immune/adipogenic pathways.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0042787","count":4},{"id":"GO:0043066","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0060396","count":4}]},{"hash":"355545037589966813","title":"Unknown","description":"The terms cover aging-related transcriptional activity, keratinocyte differentiation, immune complement activation, and various methylation processes, plus a plant flavonol biosynthesis term. Their diversity and the absence of connections among proteins (Edges: 0) suggest no single coherent function ties the cluster together, so a specific, representative label is not reliable. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090398","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0006958","count":3}]},{"hash":"1543456257742994903","title":"Drosophila sensory and epithelial morphogenesis","description":"The top GO terms point to development and patterning of sensory organs (thermosensory behavior, sensory perception of sound, antennal morphogenesis, wing hair organization) and epithelial structures (microvillus organization, brush border assembly, cuticle patterning, follicle cell microvillus organization, pigment granule transport) in Drosophila, with associated signal transduction and cellular responses, suggesting a cohesive theme of sensory/epithelial morphogenesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040040","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007165","count":2},{"id":"GO:1904970","count":2}]},{"hash":"1754143006479686053","title":"Mitotic Regulation and Stress Response","description":"This cluster is dominated by terms tied to cell-cycle control and mitosis (mitotic spindle assembly, mitotic cell cycle, regulation of meiotic nuclear division) and DNA damage responses (G1 checkpoint signaling), along with protein ubiquitination and transcription regulation, suggesting a core function in coordinating cell division with cellular stress signals. The pigmentation and SREBP terms appear peripheral, possibly reflecting broader regulatory roles or annotation breadth rather than a single cohesive pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000278","count":5}]},{"hash":"2091852810316573228","title":"Actin Cytoskeleton Remodeling and Integrin Signaling","description":"This cluster is dominated by GO terms related to actin cytoskeleton organization, filopodium assembly, Rho GTPase signaling, and integrin activation, pointing to a cohesive module of cytoskeletal dynamics and cell adhesion. Some terms like cellular response to cAMP and DNA replication appear less connected and may be incidental; however, the core signals consistently emphasize actin remodeling and adhesion regulation.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0090630","count":2}]},{"hash":"489571581448880985","title":"Robo signaling and actin cytoskeleton remodeling","description":"The terms cluster around Roundabout (Robo) signaling and nervous system development, with strong signals for cytoskeletal dynamics (Rho/GTPase regulation, actin filament branching) and cell adhesion/spreading. This points to a cohesive role in axon guidance and coordinated actin remodeling during neural development, rather than a broad metabolic function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":8},{"id":"GO:0007399","count":7},{"id":"GO:0035385","count":7},{"id":"GO:0010863","count":6},{"id":"GO:0035023","count":6}]},{"hash":"148175622968585957","title":"Cardiogenesis and Mesoderm Formation","description":"This cluster shows multiple heart development and mesoderm-related GO terms (BMP signaling, mesoderm and endoderm formation, cardiac muscle tissue development), indicating involvement in cardiogenesis. A few terms like lens fiber cell differentiation or N-glycan processing appear but don\u2019t contradict the core theme.","confidence":"Medium","size":10,"edges":10,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007492","count":3},{"id":"GO:0008101","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0048738","count":2},{"id":"GO:0008285","count":2}]},{"hash":"1604066669939853183","title":"Peroxisomal Lipid Metabolism and Energy Pathways","description":"The top GO terms point to peroxisome-linked lipid processing and energy production, with multiple peroxisomal-associated processes (glyoxysome organization) along with lipid-related activities (lipid hydroperoxide transport, cholesterol metabolic process, ketone body biosynthesis). Some terms (sporulation, liver development, apoptotic regulation) are broader or secondary annotations and do not negate the central peroxisomal lipid metabolism signal. Overall, the cluster is best described by peroxisomal lipid metabolism and energy pathways.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1901373","count":4},{"id":"GO:0008203","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0010111","count":4}]},{"hash":"1925760362185749162","title":"Amino acid and cofactor biosynthesis","description":"These proteins appear enriched for biosynthetic and metabolic processes, including amino acid biosynthesis (lysine, isoleucine, glutamate), cofactor synthesis (biotin, glutathione), and heme precursor biosynthesis (protoporphyrinogen IX), as well as the TCA cycle. The combination points to a cluster involved in central metabolism and production of amino acids and cofactors rather than a single specialized function.","confidence":"Medium","size":10,"edges":21,"triangles":17,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0006782","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0009097","count":2}]},{"hash":"2188884310226378068","title":"mRNA processing and translation initiation regulation","description":"Top GO terms cluster around mRNA maturation and splicing (mRNA processing, spliceosome, small-subunit processome) and, separately, translation initiation and reinitiation (eIF4F complex assembly, translational initiation, translation reinitiation). This overlap suggests proteins in this cluster coordinate RNA processing with control of translation. The presence of both splicing- and translation-related terms, including viral termination/reinitiation, indicates a broader role in RNA metabolism and translational regulation rather than a single enzymatic activity. The frequent connections among these terms support a cohesive group centered on RNA maturation and initiation control.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":6},{"id":"GO:0006397","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0034462","count":4}]},{"hash":"2187031107616571709","title":"Nucleotide Metabolism and Salvage","description":"GO terms mostly point to nucleotide biosynthesis and salvage (CDP, AMP/ADP biosynthesis, purine ribonucleotide interconversion, ITP metabolism), with development and nucleosome assembly appearing as peripheral annotations.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":1},{"id":"GO:0046940","count":1},{"id":"GO:0046705","count":1},{"id":"GO:0015951","count":1},{"id":"GO:0044209","count":1}]},{"hash":"177810745471871722","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":20,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071035","count":2},{"id":"GO:0071051","count":2},{"id":"GO:0071049","count":2},{"id":"GO:0034475","count":2},{"id":"GO:0000467","count":2}]},{"hash":"2212555822901456708","title":"Epithelial cell polarity and actin remodeling","description":"The cluster centers on epithelial cell surface organization, including establishment of epithelial cell polarity and tight junction assembly, and is enriched for actin-driven processes such as filopodium and ruffle formation and actin polymerization, coupled with adhesion-dependent spreading and regulated GTPase activity. These together point to a coherent module controlling epithelial polarity, adhesion, and cytoskeletal dynamics, with some broader cytoskeletal remodeling contexts like phagocytosis and synaptic plasticity contributing to actin control. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0043652","count":4}]},{"hash":"2041997677377531723","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":3},{"id":"GO:0006407","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0045903","count":2}]},{"hash":"2156976004266356507","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071318","count":1},{"id":"GO:0097171","count":1},{"id":"GO:0032361","count":1},{"id":"GO:0046050","count":1},{"id":"GO:0030836","count":1}]},{"hash":"2273168253490544682","title":"Innate Immunity and B Cell Signaling","description":"The cluster is enriched for innate immune response, defense against bacteria (Gram-positive/Gram-negative), and lipopolysaccharide response, as well as B cell receptor signaling, indicating a cohesive immune-related functional group. Some terms (mRNA tail shortening, centrosome localization) are less related, possibly noise.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0045087","count":2}]},{"hash":"496696003505751316","title":"Diverse Polysaccharide and Lipid Biosynthesis","description":"The GO terms point to a broad collection of biosynthetic processes for various polymers and surface components, including carbohydrate-derived polysaccharides (O antigen, dTDP-rhamnose, GDP-mannose) and lipid-like polymers (long-chain fatty-acyl-CoA, ether lipids, polyhydroxybutyrate, sporopollenin). A couple of entries (phenylpropanoid, L-glutamine metabolism) are more general biosynthesis processes, but the common theme is production of diverse surface-related polymers and lipid materials rather than a single, cohesive pathway. Confidence reflects this broad but coherent biosynthetic theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":4},{"id":"GO:0097171","count":4},{"id":"GO:0009699","count":4},{"id":"GO:0035336","count":4},{"id":"GO:0008611","count":4}]},{"hash":"1989159131458615365","title":"Neural development and axon guidance","description":"The dominant GO terms point to neuron projection development, axonal fasciculation, myelination, and synapse assembly, with actin cytoskeleton remodeling supporting neurite outgrowth. Immune-related terms are present but appear ancillary, so the core signal is neural development and axon guidance.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0032474","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0050830","count":2}]},{"hash":"629379339516912791","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome production and function: ribosome biogenesis, cytoplasmic translation, ribosomal subunit export from the nucleus, and tRNA modification. These indicate a coherent group of proteins involved in assembling and remodeling ribosomes and supporting translation. The additional cell cycle and cell division terms suggest possible coordination with cell proliferation, but the dominant signal is ribosome biogenesis and translation.","confidence":"High","size":10,"edges":16,"triangles":0,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0007049","count":9},{"id":"GO:0000055","count":9},{"id":"GO:1901001","count":7},{"id":"GO:0002181","count":7}]},{"hash":"1763567386910608499","title":"DNA Repair and RNA Processing","description":"The top terms are dominated by DNA repair processes (base-excision repair, nucleotide-excision repair, UV-damage excision repair, cross-link repair) and replication initiation, pointing to genome maintenance and replication control. Additional terms involve RNA processing (spliceosome-mediated splicing) and ribosomal subunit export, suggesting broader nuclear gene expression coordination. A few outliers (EMT-related regulation, vitamin D biosynthesis regulation) may reflect context-specific effects, but the core theme is nuclear DNA repair and RNA processing.","confidence":"Medium","size":10,"edges":12,"triangles":4,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":7},{"id":"GO:0010764","count":6},{"id":"GO:0006284","count":6},{"id":"GO:1901255","count":6},{"id":"GO:0070914","count":6}]},{"hash":"2057682063149447733","title":"Unknown","description":"The top GO terms are a heterogeneous mix including meiotic spindle organization, vitamin D3 metabolism, STAT phosphorylation, histone phosphorylation, sterol import, glycogen catabolic regulation, apoptotic cell clearance, development, nucleotide biosynthesis, and neuron development. There is no clear, cohesive biological theme tying all terms together, so there isn\u2019t a single representative function for the cluster. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":10},{"id":"GO:0070640","count":10},{"id":"GO:0042523","count":10},{"id":"GO:2000775","count":10},{"id":"GO:0035376","count":10}]},{"hash":"154938637686540409","title":"Unknown","description":"The GO terms in this cluster are highly diverse and span muscle development, mRNA splicing, viral processes, lipid droplets, plant sepal formation, immune cell migration, protein folding, and secretion. There isn\u2019t a single coherent function or pathway that ties these terms together, suggesting the cluster does not reflect a specific, common molecular role. Therefore, Unknown with no confident representative function assigned.","confidence":"","size":10,"edges":19,"triangles":15,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0010849","count":1},{"id":"GO:0019061","count":1},{"id":"GO:0034389","count":1}]},{"hash":"551108504933559981","title":"Nucleocytoplasmic transport and ribosome export","description":"The top GO terms cluster around nuclear import (ribosomal proteins, NLS-bearing proteins), export of ribosomal subunits and mRNA, and nuclear pore complex assembly, pointing to a shared function in nucleocytoplasmic trafficking and ribosome biogenesis/export. A couple of outlier terms (xenobiotic transport, endothelial proliferation) are present but infrequent.","confidence":"High","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006610","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0060188","count":2},{"id":"GO:0051292","count":2}]},{"hash":"2207888368709740157","title":"Cardiac conduction and neural signaling","description":"The cluster's top GO terms center on heart development and electrical activity, including SA node action potential, atrial and ventricular membrane depolarization/repolarization, and regulation of heart rate by cardiac conduction, plus transmission of nerve impulses and ionotropic glutamate receptor signaling. These collectively describe cardiac electrophysiology and neural communication. A few terms relate to immune development or hematopoiesis, which are likely incidental in this cluster.","confidence":"High","size":10,"edges":24,"triangles":21,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0086015","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035162","count":3}]},{"hash":"450680052601142224","title":"Immune-ECM remodeling and neural signaling","description":"The top GO terms point to adaptive immune response, neutrophil extravasation, and proteolysis, combined with integrin signaling and collagen fibril organization, indicating ECM remodeling and leukocyte trafficking. Additionally, paranodal junction assembly, Roundabout (ROBO) signaling, and synapse assembly hint at neural development/signaling. The mix suggests a cluster of proteins involved in immune processes intertwined with extracellular matrix interactions and neural-related signaling. Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:2000391","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0010765","count":4}]},{"hash":"1081767231088171563","title":"Unknown","description":"The top GO terms are a mix of pigmentation, fertilization, cytoskeletal organization, protein oligomerization, metabolism, and stress responses, with no clear shared function or pathway linking the proteins. Edges are zero, suggesting no cohesive cluster function. Therefore no single representative function; label Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0045214","count":2}]},{"hash":"476301904318826664","title":"Innate Immune Activation and Lymphangiogenesis","description":"This cluster centers on innate immune signaling, including responses to fungal origin molecules, basophil activation, and lectin pathway complement activation, with a concurrent emphasis on leukocyte adhesion and arachidonic acid\u2013derived mediators. It also features lymphatic vessel morphogenesis, suggesting a link between immune signaling and vascular/lymphatic remodeling. Some development terms (kidney and cartilage morphogenesis) are present but appear less central to the core theme.","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":9},{"id":"GO:2000502","count":9},{"id":"GO:0090238","count":8},{"id":"GO:0072287","count":8},{"id":"GO:0001502","count":8}]},{"hash":"1507949563785443432","title":"Ubiquitin-Driven Degradation and Innate Immunity","description":"This cluster centers on protein ubiquitination and ubiquitin-dependent degradation (including ERAD and K6-linked ubiquitination), indicating a shared role in protein turnover. The presence of innate immune and antiviral defenses (defense response to virus, innate immune response, NF-kappaB activation) and V(D)J recombination suggests broader involvement in immune signaling. The most coherent theme is regulation of protein fate via ubiquitination with immune-related functions, though a few terms (like Wnt receptor catabolic process) are ancillary. Overall, the label reflects the dominant connection to ubiquitin-mediated proteolysis and immune signaling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0030433","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4}]},{"hash":"1294257398827346617","title":"DNA Replication and Repair","description":"This cluster is dominated by GO terms for DNA repair and DNA replication (and related nucleotide-excision repair processes), with additional terms pointing to DNA integration and proviral latency, suggesting a core theme of genome maintenance and potential viral genome integration. The inclusion of RNA polymerase I transcription terms is less central but may reflect linked gene expression in related genomic maintenance contexts. Overall, DNA replication and repair best captures the shared function of these proteins.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0015074","count":2}]},{"hash":"2293524065860194363","title":"Adipogenesis and lipid biosynthesis","description":"The dominant GO terms point to lipid metabolism and adipocyte differentiation (sphinganine and sphingosine sphingolipid biosynthesis, monounsaturated fatty acid biosynthesis, and white fat cell differentiation), suggesting the cluster centers on fat cell lipid production. A couple of terms (photoinhibition, detoxification) appear less related, likely background noise.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0006667","count":1},{"id":"GO:1903966","count":1},{"id":"GO:0010205","count":1},{"id":"GO:0007053","count":1}]},{"hash":"2290125044331509813","title":"Developmental morphogenesis and organogenesis","description":"The top GO terms cluster around morphogenesis and organ development across multiple tissues: nerve formation (trochlear and oculomotor), olfactory interneuron differentiation, cranial skeleton and ear morphogenesis, limb patterning, and development of endocrine pancreas and lung. A general transcriptional regulation term may reflect developmental control of gene expression. Overall, this suggests a theme of broad developmental morphogenesis across organs. ","confidence":"High","size":10,"edges":17,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:2000836","count":9},{"id":"GO:0021642","count":9},{"id":"GO:0060441","count":9},{"id":"GO:0021889","count":9}]},{"hash":"67478915831970120","title":"Multisystem Development and Exocytosis via Rho Signaling","description":"Top GO terms indicate development across nervous, skeletal, and heart systems, suggesting a multisystem developmental theme. The presence of vesicle fusion, calcium-dependent exocytosis, and Rho GTPase signaling points to a coordinated role for cytoskeletal dynamics and vesicle trafficking in development. This makes multisystem development with exocytosis and Rho signaling a concise, representative label.","confidence":"High","size":10,"edges":38,"triangles":74,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007420","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0001302","count":9}]},{"hash":"1729897519627410683","title":"Bacterial defense and flagellum-related processes","description":"The cluster is driven by GO terms for defense response to bacterium and bacterial-type flagellum assembly/motility, indicating a core theme around bacteria-associated interactions and flagellar functions. Additional terms like transcription regulation and lipid metabolism may reflect broader cellular roles but do not override the central bacterial defense/flagellum signal.","confidence":"Medium","size":10,"edges":16,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:0044780","count":2},{"id":"GO:0090465","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0090463","count":2}]},{"hash":"14245137694242023","title":"Cardiac sarcomere organization and contraction","description":"This cluster is dominated by GO terms related to cardiac muscle contraction, sarcomere organization, and regulation of muscle filament sliding speed, along with ventricular morphogenesis. These indicate a cohesive focus on the structural and kinetic aspects of cardiomyocytes and their contractile machinery. A few terms about visual perception, phototransduction, and axonogenesis appear but are less represented, suggesting these proteins may have additional, context-dependent roles beyond cardiomyocytes. Overall, the cardiac/sarcomeric theme best explains the enrichment in this cluster.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":7},{"id":"GO:0045214","count":6},{"id":"GO:0014883","count":5},{"id":"GO:0032972","count":5},{"id":"GO:0055010","count":5}]},{"hash":"1053881698760283858","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006068","count":3},{"id":"GO:0030205","count":3},{"id":"GO:0045600","count":3},{"id":"GO:0006044","count":3},{"id":"GO:0002002","count":3}]},{"hash":"1393118038808763186","title":"Epigenetic Chromatin Regulation","description":"GO terms cluster around histone methylation/demethylation, histone deacetylase activity, and other chromatin modifications, indicating epigenetic/chromatin regulation as the shared function; a few terms relate to autophagy and immune tolerance but are less central.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":4},{"id":"GO:0061188","count":3},{"id":"GO:0002458","count":3},{"id":"GO:1901726","count":3},{"id":"GO:2000584","count":3}]},{"hash":"81259779195787769","title":"Developmental morphogenesis and cell cycle regulation","description":"The top GO terms include multicellular organism development, skeletal system morphogenesis, pigmentation, mitotic cell cycle, regulation of meiotic nuclear division, and DNA damage checkpoint signaling, which collectively point to developmental differentiation and tissue morphogenesis, coupled with cell division control. Additional terms like microtubule severing and ER-stress\u2013driven apoptotic signaling indicate cytoskeletal dynamics and stress responses during development. The cluster appears to group proteins involved in development-associated processes and tight regulation of cell division, with some stress response modulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0040020","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0032933","count":5}]},{"hash":"1777712364442138312","title":"Innate immune signaling and interferon responses","description":"The Top Terms cluster around immune defense and signaling: defense response to Gram-positive bacteria; GPCR signaling leading to PLC activation; JNK and NF-\u03baB pathway regulation; type I interferon and chemokine production. While a few terms touch on development, the dominant theme is GPCR-mediated innate immune signaling and inflammatory cytokine/chemokine responses. Confidence: Medium","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0007200","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0046784","count":3}]},{"hash":"1444997091074090333","title":"Neuronal signaling and vesicle trafficking","description":"These proteins are enriched for GO terms related to intracellular transport, calcium- and PI-mediated signaling, neurotransmitter secretion, and synaptic plasticity (e.g., brain development, long-term synaptic potentiation). While some terms reference non-neuronal contexts, the strongest pattern points to signaling processes tied to vesicle trafficking and neuronal communication.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0007269","count":3}]},{"hash":"267385114263973181","title":"Embryonic Development and Tissue Morphogenesis","description":"Top GO terms point to developmental processes across tissues (endocrine/pancreatic development, trophoblast/placenta development, cartilage morphogenesis, left-right pattern formation) with accompanying transcriptional regulation, suggesting a cluster centered on embryonic development and organogenesis. A couple of deprecated terms appear but do not negate the overarching theme.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0007576","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0000122","count":1}]},{"hash":"337491224132477297","title":"Embryonic Mesoderm Development and Patterning","description":"The GO terms cluster around embryogenesis with a focus on mesoderm development, left-right patterning, and heart-related processes such as endocardial cushion EMT, plus craniofacial and placental development. While a couple entries touch on DNA repair or stress responses, the dominant signal is embryonic development and mesoderm-patterning pathways, making this label representative of the cluster\u2019s core function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":1},{"id":"GO:0000012","count":1},{"id":"GO:0042542","count":1},{"id":"GO:0060021","count":1},{"id":"GO:0003323","count":1}]},{"hash":"176677732805941691","title":"Heart GPCR Signaling and Contraction","description":"The most represented terms point to GPCR-mediated signaling and heart function: desensitization of GPCR signaling, regulation of adrenergic receptor pathways, tachykinin receptor signaling, and cardiac muscle contraction. There is also a heart-field development term and a general intracellular signaling term, suggesting a cardiac signaling cluster with some broader pathway ties; a few terms (e.g., intramembranous ossification) appear as outliers.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":2},{"id":"GO:0003139","count":2},{"id":"GO:0002029","count":2},{"id":"GO:0071877","count":2},{"id":"GO:0061737","count":2}]},{"hash":"1105460289978056634","title":"Immune signaling and cell adhesion","description":"Top GO terms center on immune activation (T cell activation) and cell movement (neutrophil chemotaxis, integrin-mediated signaling, Rho signaling) with extracellular matrix involvement (hyaluronan metabolism) and vascular/developmental processes (angiogenesis, heart/CNS development). This points to a cohesive theme of immune cell adhesion and migration within ECM contexts, though some developmental terms may reflect broader remodeling. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030212","count":5},{"id":"GO:0002291","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007229","count":3},{"id":"GO:0007507","count":3}]},{"hash":"198636530481326336","title":"Dopamine and Serotonin Neurotransmission Regulation","description":"This cluster is driven by GO terms tied to monoamine neurotransmission, especially dopamine metabolism and catabolism and regulation of serotonin secretion, with supporting signals for dopaminergic/serotonergic responses to xenobiotic stimuli and stress (ethanol, corticosterone). The recurring pattern points to coordinated regulation of dopamine and serotonin signaling, rather than a single isolated metabolic pathway.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0051412","count":3},{"id":"GO:0010044","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0045964","count":3}]},{"hash":"778960800540384717","title":"Actin and microtubule cytoskeleton remodeling","description":"The top GO terms cluster around cytoskeletal dynamics: microspike assembly, mitotic spindle assembly, and regulation of microtubule stability, plus positive regulation of GTPase activity and actin cytoskeleton reorganization, indicating coordinated remodeling of actin and microtubules; a few terms touch on trafficking and signaling but the dominant theme is cytoskeleton dynamics.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030035","count":3},{"id":"GO:2000009","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007026","count":2}]},{"hash":"1938843732332722764","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":15,"triangles":6,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071031","count":7},{"id":"GO:0000398","count":7},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0010610","count":5}]},{"hash":"512237635232796830","title":"Neural Development and Apoptosis","description":"The top GO terms cluster around neuronal and glial apoptotic processes, neural tube closure, and forebrain development, with supporting cues from ER stress\u2013related and DNA damage\u2013response signaling. This points to a theme of neural development tightly linked to apoptotic regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0070059","count":4},{"id":"GO:0034349","count":4},{"id":"GO:0072432","count":4},{"id":"GO:0007275","count":4}]},{"hash":"314413807162369312","title":"Toll-like and NF-kappaB Cytokine Signaling","description":"The top GO terms concentrate on innate immune signaling: Toll-like receptor 1 signaling, Toll signaling, and positive regulation of non-canonical NF-kappaB signaling, along with regulation of cytokine production. While developmental morphogenesis terms appear, the strongest signal centers on Toll/NF-kB\u2013mediated cytokine signaling, suggesting the cluster primarily reflects immune signaling. Confidence: Medium","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0090260","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0032474","count":2},{"id":"GO:0034130","count":2}]},{"hash":"1735517694844795014","title":"Ubiquitination Regulators in Immune Signaling","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis, monoubiquitination, K63-linked ubiquitination, autoubiquitination, and regulation of these pathways) with several immune-related terms (B cell homeostasis, IL-2 regulation) and membrane repair. This points to a set of proteins primarily involved in ubiquitin-mediated regulation of protein turnover and signaling in immune contexts, justifying a label centered on ubiquitination with immune signaling relevance.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001782","count":6},{"id":"GO:0042787","count":5},{"id":"GO:0060669","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0046328","count":5}]},{"hash":"2267823769305578669","title":"Cellular Stress Response and Genome Stability","description":"The top GO terms cluster around ER-stress\u2013induced apoptosis, DNA repair regulation, ubiquitination (including ISG15 conjugation), inflammatory signaling (IL-1 response), and telomere maintenance, pointing to a concerted role in responding to cellular stress while preserving genome integrity. Some terms are obsolete, but the core themes converge on stress response and genome maintenance.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0070059","count":9},{"id":"GO:0031058","count":9},{"id":"GO:0045739","count":9},{"id":"GO:0032020","count":9},{"id":"GO:0071347","count":9}]},{"hash":"1875736421325724509","title":"Redox homeostasis and oxidative stress response","description":"The cluster's top GO terms cluster around maintaining redox balance and detoxifying oxidants (cell redox homeostasis, cellular oxidant detoxification, cellular response to hydrogen peroxide). Although a couple terms point to extracellular matrix organization or erythrocyte homeostasis, the dominant signal is oxidative stress management, implying these proteins function together in redox regulation and response to oxidants.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0018171","count":3},{"id":"GO:0070301","count":3}]},{"hash":"1498436944105353506","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0031954","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0051301","count":2}]},{"hash":"424013075244396207","title":"Preribosome Assembly and Ribosome Biogenesis","description":"The top terms are dominated by ribosome biogenesis tasks\u2014large-subunit biogenesis, preribosome assembly, and LSU-rRNA maturation\u2014pointing to a nucleolar ribosome production program. Additional enrichment for DNA replication, chromatin remodeling, and cell-cycle regulation suggests coordination between ribosome assembly and cell growth/maintenance, with a few development and stress-related terms likely reflecting broader roles of these proteins. ","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0006977","count":3},{"id":"GO:0048701","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1902626","count":2}]},{"hash":"1914161444456053660","title":"Tissue Morphogenesis and Axon Guidance","description":"The top GO terms point to morphogenesis and patterning of tissues (endoderm and notochord, epithelial polarity, hair orientation) alongside neural connectivity processes (axon extension and motor neuron guidance), suggesting a cluster of proteins involved in developmental tissue formation and neural wiring.","confidence":"High","size":9,"edges":26,"triangles":36,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061031","count":5},{"id":"GO:0060488","count":5},{"id":"GO:0048105","count":5},{"id":"GO:0001738","count":5},{"id":"GO:0060035","count":5}]},{"hash":"487541302785263244","title":"EMT-Linked Endocytosis and ECM Remodeling in Development","description":"The cluster features multiple GO terms tied to epithelial-to-mesenchymal transition (EMT), endothelial cell migration, and extracellular matrix organization (fibronectin fibril organization, tight junction assembly), plus developmental processes (somite and spinal cord development). It also includes receptor-mediated endocytosis and lipoprotein transport/clearance, and apoptotic cell clearance, suggesting a cohesive theme of developmental tissue remodeling where EMT and cell movement are coordinated with ECM remodeling and selective endocytic processes. Overall, a developmental EMT/ECM remodeling module with associated endocytosis fits best.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034381","count":5},{"id":"GO:0043542","count":5},{"id":"GO:0006898","count":5},{"id":"GO:0001837","count":5},{"id":"GO:1904274","count":5}]},{"hash":"1775183964242030583","title":"Nuclear RNA processing and ribosome export","description":"This cluster is dominated by GO terms related to nuclear RNA handling and ribosome biogenesis: RNA import into the nucleus, tRNA processing, and export of ribosomal subunits from the nucleus, plus regulation of protein export and protein catabolic processes. These collectively point to roles in RNA maturation and ribosome assembly within the nucleus. A few other terms pertain to development or signaling (meristem initiation, polarity, synaptic transmission), which may reflect multifunctional proteins or broader annotations but do not override the core theme. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":2},{"id":"GO:0000056","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0000055","count":2}]},{"hash":"2041414989670630961","title":"Amino acid and fatty acid catabolism","description":"The Top Terms include leucine catabolic process, long- and medium-chain fatty acid catabolic processes, and uracil catabolic process, plus a xenobiotic response. This points to a shared theme of breakdown/metabolism of diverse substrates (amino acids and fatty acids). A few terms like heart development and protein tetramerization seem less related, likely annotation noise rather than core cluster functions.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0019439","count":3},{"id":"GO:0006552","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0042493","count":3}]},{"hash":"1728096840512342852","title":"Cytoskeleton dynamics and polarity signaling","description":"The set of GO terms centers on cytoskeletal regulation and cell polarity (Rho/GTPase signaling, cell spreading, epithelial polarity) and broader developmental differentiation processes (neuronal, osteoblast, B cell lineages). This suggests a cluster of proteins involved in modulating cytoskeleton-driven signaling that governs cell shape, adhesion, and lineage-associated differentiation rather than a single function.","confidence":"Medium","size":9,"edges":15,"triangles":6,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":9},{"id":"GO:1901076","count":9},{"id":"GO:0034260","count":9},{"id":"GO:0009952","count":9},{"id":"GO:0035023","count":9}]},{"hash":"234915155748592778","title":"Lipid droplet dynamics and triglyceride metabolism","description":"The GO terms cluster strongly around lipid droplet transport, organization, and protein localization to lipid droplets, along with triglyceride mobilization and regulation of fatty acid beta-oxidation. This suggests a cohesive role in lipid droplet biology and fatty acid metabolism, including regulatory aspects (e.g., PPAR signaling) and ROS-related modulation. Overall, the proteins likely function together in lipid droplet dynamics and triglyceride/fatty acid processing.","confidence":"High","size":9,"edges":15,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031887","count":3},{"id":"GO:0010867","count":3},{"id":"GO:0034389","count":3},{"id":"GO:2000378","count":3},{"id":"GO:0031999","count":3}]},{"hash":"1309023731639743891","title":"Embryonic Development and Cytoskeleton Dynamics","description":"The top GO terms point to broad developmental and morphogenetic processes (embryonic digit morphogenesis, nervous system and kidney development, hair follicle placode formation) with strong links to cytoskeletal remodeling (tubulin complex assembly) and signaling (GPCR/S1P pathways). This suggests a cluster of proteins coordinating morphogenesis across tissues, with notable emphasis on neural development and cytoskeletal dynamics. ","confidence":"Medium","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":8},{"id":"GO:0042733","count":8},{"id":"GO:0007399","count":8},{"id":"GO:1903554","count":8},{"id":"GO:0007021","count":8}]},{"hash":"1273678219575342292","title":"GPCR-driven inflammatory and vascular signaling","description":"The GO terms converge on GPCR signaling (including adenosine receptor and opsin pathways) with downstream effects on vascular permeability and neutrophil chemotaxis/activation, plus regulation of IL-1\u03b2\u2014together indicating a GPCR-mediated inflammatory\u2013vascular module.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":3},{"id":"GO:1903141","count":3},{"id":"GO:0016056","count":3},{"id":"GO:0007202","count":3},{"id":"GO:0010579","count":3}]},{"hash":"1243830889127297693","title":"Cytoskeleton remodeling and cell adhesion","description":"The top GO terms are dominated by cytoskeletal and membrane-associated processes\u2014actin filament dynamics (barbed-end capping), mitotic contractile ring assembly, and regulation of cell spreading and phagocytic engulfment\u2014pointing to a cohesive theme of cytoskeleton remodeling and adhesion-related signaling. While some terms are weaker connections (e.g., cholecystokinin response or obsolete terms), the prevailing pattern supports a cytoskeletal/regulatory cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":1},{"id":"GO:0070668","count":1},{"id":"GO:1900740","count":1},{"id":"GO:0048711","count":1},{"id":"GO:0060988","count":1}]},{"hash":"655365368817183458","title":"Unknown","description":"The top GO terms are scattered across oxidative stress responses (cellular response to hydrogen peroxide; cell redox homeostasis) and unrelated processes (RNA splicing, cAMP signaling, renal water transport, cytoskeletal anchoring, and glycogen regulation). With no clear unifying function and no edges connecting proteins, there isn\u2019t a cohesive theme to label beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:0007016","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0090502","count":1},{"id":"GO:1903507","count":1}]},{"hash":"255776370832137304","title":"Immune signaling and ER protein trafficking","description":"Most frequent GO terms cluster around immune system activity: innate immune response-activating signaling pathway, T cell cytokine production, and T cell apoptotic process. Additionally, protein transport and protein retention in the ER lumen point to trafficking processes connected to immune signaling. A few plant-specific metabolic terms appear, likely noise, but the core theme is immune signaling with ER-associated protein handling.","confidence":"Medium","size":9,"edges":14,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010204","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0002369","count":2}]},{"hash":"101537385217896516","title":"Neurotransmitter Exocytosis and SNARE-Mediated Trafficking","description":"The terms cluster around the secretory pathway and synaptic release: SNARE complex assembly, vesicle fusion with the Golgi, ER-Golgi transport, and exocytic insertion of receptors, plus regulation of norepinephrine secretion and protein localization to the plasma membrane. This points to a coherent role in presynaptic neurotransmitter release and membrane trafficking in neurons.","confidence":"High","size":9,"edges":10,"triangles":1,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0010701","count":4},{"id":"GO:0048280","count":4},{"id":"GO:0035493","count":4},{"id":"GO:0090166","count":4},{"id":"GO:0098967","count":4}]},{"hash":"723517930772008006","title":"Neural development and synapse assembly","description":"The prevalence of GO terms such as nervous system development, synapse assembly, and neuron cell-cell adhesion indicates the proteins are enriched for neural connectivity and synaptic formation roles. While there are additional morphogenesis and integument-related terms present, the dominant theme is neural development and synaptic adhesion, which justifies the label.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032773","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0016339","count":3},{"id":"GO:0051965","count":3},{"id":"GO:1903142","count":3}]},{"hash":"2221181557660804139","title":"Multilineage development and differentiation","description":"These proteins are annotated with GO terms spanning multiple developmental contexts (nervous system development, placenta morphogenesis, erythrocyte maturation, macrophage/granulocyte differentiation, germ-line and follicle cell processes). The shared theme is broad developmental regulation across tissues rather than a single pathway, suggesting a cluster of proteins involved in general differentiation programs. The lack of network edges further supports labeling by shared functional potential rather than a tight pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0043249","count":2}]},{"hash":"1382696068830435166","title":"Metabolic-Immune Regulation","description":"The terms cluster around energy homeostasis and insulin signaling, with immune-related processes (macrophage activation, TLR4 signaling) and lipid regulation, hinting at metabolic-immune crosstalk. A few other terms refer to development (heart/dorsal vessel, pancreatic proliferation), suggesting a broad, overlapping functional theme rather than a single precise process.","confidence":"Medium","size":9,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0090341","count":2},{"id":"GO:2000505","count":2},{"id":"GO:0061469","count":2},{"id":"GO:0034144","count":2},{"id":"GO:0035053","count":2}]},{"hash":"1316494188260697344","title":"GPCR-CaMP Signaling Cluster","description":"The top GO terms point to GPCR signaling and cAMP-related responses (adenylate cyclase activation, forskolin response, and related pathways), suggesting these proteins share a role in receptor-mediated second messenger signaling. Some terms touch on development or electrophysiology, but the dominant theme is GPCR-cAMP signaling.","confidence":"Medium","size":9,"edges":12,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:1904322","count":3},{"id":"GO:0050916","count":3},{"id":"GO:1903554","count":3},{"id":"GO:0001508","count":3}]},{"hash":"1850977528644854557","title":"Virus entry and proviral integration","description":"The cluster\u2019s GO terms cluster around viral aspects (viral entry into the host, establishment of integrated proviral latency) alongside DNA replication/recombination and DNA integration, suggesting a theme of viral infection and genome integration with involvement of host DNA processing functions.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0090267","count":2},{"id":"GO:0071140","count":2},{"id":"GO:0006289","count":2}]},{"hash":"515637664851651633","title":"Retinoid metabolism and RA signaling","description":"This cluster is driven by retinal and retinol metabolic processes and regulation of retinoic acid receptor signaling, which point to a core theme of vitamin A metabolism and retinoic acid signaling. Additional terms like oxidative stress response and thyroid hormone response are present but appear secondary to the retinoid-centric terms.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":8},{"id":"GO:0042572","count":8},{"id":"GO:0070301","count":6},{"id":"GO:1901653","count":6},{"id":"GO:0097066","count":6}]},{"hash":"1163981545011967604","title":"Microtubule-based spindle dynamics and nuclear migration","description":"The top GO terms cluster around microtubule dynamics and spindle function (minus-end sliding, spindle pole separation, plus-end depolymerization) as well as nuclear and vesicle movement along microtubules and cytokinesis, suggesting a coherent theme of microtubule-driven cell division and intracellular transport. Some terms (epidermal stem cell homeostasis, cerebellar granular layer organization, Rap signaling) point to broader, tissue- or organism-wide roles, but the dominant signal is microtubule-associated mitotic and motility processes.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031534","count":8},{"id":"GO:0000073","count":8},{"id":"GO:0070462","count":8},{"id":"GO:0036334","count":8},{"id":"GO:0032487","count":8}]},{"hash":"2098666629853035749","title":"Unknown","description":"The GO terms cover diverse processes (lipid/glycogen metabolism, mitosis and spindle dynamics, NFAT signaling, myelination, and locomotion) with no clear common function, so a single representative label isn't feasible.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006685","count":8},{"id":"GO:1903501","count":8},{"id":"GO:0046086","count":8},{"id":"GO:0005977","count":8},{"id":"GO:0031987","count":8}]},{"hash":"1678608762908369209","title":"Neuronal Synaptic Signaling and Development","description":"The top GO terms cluster around synaptic function and neural development, including excitatory postsynaptic potential, calcium-dependent exocytosis, dopamine response, and hippocampus development, along with axon extension and focal adhesion regulation\u2014points to proteins involved in neurotransmitter release and neuronal growth/remodeling. Some terms (mitotic cell cycle, actin cytoskeleton reorganization) are more general but may reflect shared cytoskeletal and regulatory components active in synaptic and neuronal development processes. Overall, a cohesive theme of neuronal signaling and development.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0045956","count":8},{"id":"GO:0021766","count":8},{"id":"GO:0000278","count":8}]},{"hash":"205713244983625248","title":"Ubiquitin/SUMO Regulation of Proteostasis","description":"The cluster includes GO terms for protein sumoylation, autoubiquitination, and negative regulation of proteasomal protein catabolic process, plus ERAD-related and ubiquitin-dependent processes, pointing to a proteostasis-focused set of functions. Additional terms like positive regulation of mitochondrial fusion and spindle pole body duplication suggest broader links to cellular quality control and division. Taken together, these terms most coherently define a proteostasis-centered cluster driven by ubiquitin and SUMO modifications.","confidence":"Medium","size":8,"edges":24,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":6},{"id":"GO:0033132","count":5},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5},{"id":"GO:1901799","count":4}]},{"hash":"225076606277632123","title":"Broad metabolism with extracellular signaling regulation","description":"The top GO terms span multiple distinct metabolic pathways (ethanol, pyruvate/fermentation, fatty acid biosynthesis and oxidation, furaldehyde, retinoic acid, lignin) plus extracellular regulation of signal transduction, plus broader physiological processes like respiratory system activity and copper response. This suggests a cluster of proteins involved in diverse metabolic processes with an accompanying role in regulating extracellular signaling, rather than a single, cohesive pathway. Therefore the label reflects a broad metabolic/regulatory theme rather than a specific pathway. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006068","count":6},{"id":"GO:1900116","count":6},{"id":"GO:0003016","count":6},{"id":"GO:0033859","count":6},{"id":"GO:0042573","count":6}]},{"hash":"2155682634021674007","title":"Phosphoinositide signaling and phagocytosis regulation","description":"Top GO terms indicate granuloma formation and regulation of phagocytosis, complemented by phosphatidylinositol-mediated signaling and Rho-mediated signal transduction, all pointing to immune cell activation and cytoskeletal control of uptake. The dominant theme is membrane signaling that governs phagocytosis and granulomatous responses, though a mating projection growth term likely represents noise or broad annotation. Overall, the label reflects the core function of immune/phagocytic signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002432","count":2},{"id":"GO:0050764","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0048015","count":2},{"id":"GO:2000560","count":2}]},{"hash":"2253715926620895966","title":"Neural Development and Metabolic Processes","description":"The cluster includes GO terms indicating neural development (neural tube development, proximal/distal pattern formation, neuromuscular balance) alongside various metabolic/catabolic processes (GABA, ethanol, retinal metabolism, acetate biosynthesis, etc.), suggesting a shared theme around developmental biology with metabolic context, particularly in neural and neuromuscular systems.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":1},{"id":"GO:0042574","count":1},{"id":"GO:0009450","count":1},{"id":"GO:0010133","count":1},{"id":"GO:0019545","count":1}]},{"hash":"507577028694835844","title":"Ribosome Biogenesis and Translation","description":"This cluster is enriched for translation-related terms (translation, cytoplasmic translation) and ribosome biogenesis (ribosome biogenesis, maturation of SSU-rRNA, ribosomal small subunit biogenesis), indicating involvement in ribosome assembly and protein synthesis; other RNA processing terms are peripheral noise relative to the dominant ribosome/translation signal.","confidence":"High","size":8,"edges":21,"triangles":35,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0002181","count":2}]},{"hash":"2154750469443950885","title":"Renin\u2013angiotensin system and kidney development","description":"The cluster\u2019s GO terms strongly center on the renin-angiotensin system, with regulation of blood volume, angiotensin maturation, and aldosterone production, plus mesonephros (kidney) development. Supporting signals like drinking behavior (thirst) and cGMP response may reflect physiological regulation linked to RAAS, while other terms (amyloid-related processes) appear as outliers. Overall, the dominant theme ties to RAAS signaling and renal development, making the label representative, though with some peripheral terms.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050435","count":2},{"id":"GO:0070305","count":2},{"id":"GO:0033619","count":2},{"id":"GO:0042985","count":2},{"id":"GO:0042756","count":2}]},{"hash":"1769917097985373283","title":"Sulfur-related amino acid metabolism","description":"Top GO terms cluster around cysteine biosynthesis, transsulfuration, hydrogen sulfide production, and amino acid catabolism, indicating a shared focus on sulfur-containing amino acid metabolism. A few terms such as pyruvate biosynthesis and coenzyme M biosynthesis are peripheral, but they do not override the central theme.","confidence":"High","size":8,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019343","count":3},{"id":"GO:0006535","count":3},{"id":"GO:0042866","count":3},{"id":"GO:0018871","count":3},{"id":"GO:0019346","count":3}]},{"hash":"1671131978311539995","title":"Cell Cycle and DNA Replication","description":"The top GO terms cluster around core proliferative and genome-maintenance processes (cell division, mitotic cell cycle, DNA replication, meiosis I, base-excision repair), with additional terms for growth and translation that can accompany cell proliferation. This suggests a common theme of cell cycle progression and genome maintenance driving the cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0043984","count":3},{"id":"GO:0035264","count":2}]},{"hash":"347013428504463811","title":"Hippocampal development and synaptic signaling","description":"The top GO terms cluster around neuronal development and synaptic function: hippocampus development, excitatory postsynaptic potential, axon extension, and cellular response to dopamine, with supporting roles for cytoskeletal dynamics and focal adhesion regulation. While DNA replication and mitotic cell cycle appear, the dominant signal is growth and activity of hippocampal neurons and their synapses, justifying a label focused on hippocampal development and synaptic signaling.","confidence":"Medium","size":8,"edges":18,"triangles":15,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0021766","count":7},{"id":"GO:0000278","count":7}]},{"hash":"124413653180530509","title":"Unknown","description":"The top GO terms include meiotic spindle organization, histone phosphorylation, STAT signaling, Rho signaling, multicellular development, and diverse metabolic processes (sterol import, vitamin D3 metabolism, glycogen regulation). This broad mix does not point to a single coherent function for the cluster.","confidence":"","size":8,"edges":18,"triangles":23,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":8},{"id":"GO:0070640","count":8},{"id":"GO:0042523","count":8},{"id":"GO:2000775","count":8},{"id":"GO:0035376","count":8}]},{"hash":"1533135149808753099","title":"Redox Metabolism and Oxidative Stress Response","description":"The top GO terms point to oxidative stress response and redox-related metabolism (ferredoxin metabolism, ATP-linked electron transport), with supporting mentions of protein modification/repair. While a few terms (nitrogen fixation, lactation) are less related, the dominant theme is redox energy metabolism and oxidative stress management.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0030091","count":2},{"id":"GO:0006979","count":2},{"id":"GO:0006464","count":2},{"id":"GO:0009399","count":2}]},{"hash":"2304184583531907753","title":"Immune Signaling and Inflammatory Regulation","description":"Top GO terms cluster around immune activation and inflammation (inflammatory response, B cell receptor signaling, non-canonical NF-kappaB signaling, death receptor\u2013mediated apoptosis). Some terms touch on broader signaling and tissue-specific processes (muscle channel clustering, neuronal plasticity), but the dominant pattern is regulation of immune/inflammatory signaling.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042346","count":2},{"id":"GO:0045987","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0071340","count":2},{"id":"GO:2000179","count":1}]},{"hash":"532375450561635769","title":"Calcium signaling in neural development","description":"These proteins appear linked by calcium-dependent signaling pathways involved in neural development and astrocyte differentiation. The presence of terms about release/regulation of sequestered calcium from the sarcoplasmic reticulum, corticosterone response, and astrocyte differentiation supports a theme of Ca2+-mediated signaling affecting neural/glial development. Some terms (e.g., face morphogenesis) point to broader developmental roles, which reduces specificity. Overall, the label reflects a coherent but not exclusively defined function for the cluster, yielding Medium confidence. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":2},{"id":"GO:2000675","count":1},{"id":"GO:0010880","count":1},{"id":"GO:0051412","count":1},{"id":"GO:0014808","count":1}]},{"hash":"349133850784276078","title":"Meiosis and early development","description":"The top GO terms center on meiosis-related processes (spindle assembly in female meiosis I, oocyte maturation, and microtubule dynamics) and cell-cycle regulation (ubiquitin-dependent degradation). There are also terms tied to developmental events (neural tube closure, third ventricle development) and proliferation control, suggesting the cluster spans both gametogenesis and early development stages. Thus, a label capturing both meiosis and early development is appropriate.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007057","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0021678","count":4},{"id":"GO:0001556","count":4},{"id":"GO:0070544","count":4}]},{"hash":"2016555326025798381","title":"Proteostasis and mitochondrial quality control","description":"Based on the GO terms, this cluster centers on ubiquitin-proteasome\u2013related regulation (deubiquitination, ERAD-related processes) and mitochondrial maintenance (mitophagy, mitochondrial fusion), with a note of cell-cycle related process (spindle pole body duplication). Together, these terms suggest a cohesive theme of proteostasis intertwined with mitochondrial quality control.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:1901799","count":5},{"id":"GO:0010636","count":5},{"id":"GO:0030474","count":5},{"id":"GO:1903071","count":5}]},{"hash":"479029075767025224","title":"Regulation of cell cycle, signaling, and development","description":"The core terms highlight cell division and chromatin dynamics (meiotic spindle organization; H3S10 phosphorylation involved in chromosome condensation) and development (multicellular organism development), with supporting signaling pathways (positive regulation of STAT tyrosine phosphorylation; GPCR phosphorylation). Metabolic terms (sterol import, vitamin D3 metabolism, glycogen catabolic regulation) suggest broader cellular state rather than a tight metabolic module. Overall, the cluster seems centered on regulation of cell cycle progression and signaling in developmental contexts, hence the chosen label.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":8},{"id":"GO:0070640","count":8},{"id":"GO:0042523","count":8},{"id":"GO:2000775","count":8},{"id":"GO:0002030","count":8}]},{"hash":"1887031041909472854","title":"Cardiac ion transport and excitation-contraction coupling","description":"The top GO terms converge on ion homeostasis (Na+, K+, Ca2+, Mn2+), calcium handling in the sarcoplasmic reticulum, and T-tubule organization, along with regulatory effects on heart contraction and cardiac hypertrophy. This combination points to a cohesive role in cardiac excitation-contraction coupling and ion transport processes.","confidence":"High","size":8,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002028","count":4},{"id":"GO:0098736","count":4},{"id":"GO:0033292","count":4},{"id":"GO:1903243","count":4},{"id":"GO:0032468","count":4}]},{"hash":"1371824999712089870","title":"Epithelial differentiation and gland development","description":"This cluster shows strong representation of epithelial-related development terms, including mammary gland alveolus development and positive regulation of mammary gland epithelial cell proliferation, as well as multi-ciliated epithelial cell differentiation. There are also signals of transcriptional regulation and cell cycle control (DNA-templated transcription, cell division, regulation of the cell cycle) that commonly underpin differentiation processes. While Leydig cell differentiation is present, the dominant theme appears to be epithelial differentiation and gland development, with associated proliferation; hence the chosen label captures the core functional theme of the cluster.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0033327","count":6},{"id":"GO:0060749","count":6},{"id":"GO:0030857","count":5},{"id":"GO:0051301","count":5}]},{"hash":"2166637245928443886","title":"Embryonic neural and craniofacial morphogenesis","description":"The top GO terms cluster around neural development (cranial nerve formation and motor neuron differentiation) and craniofacial organ morphogenesis (skeleton, middle ear), with additional embryonic organogenesis signals (lung branching, pancreas development). This points to an overall theme of embryonic tissue morphogenesis, especially neural and craniofacial systems, justifying the label.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000836","count":8},{"id":"GO:0021642","count":8},{"id":"GO:0060441","count":8},{"id":"GO:0021889","count":8},{"id":"GO:0021623","count":8}]},{"hash":"755268709574715431","title":"Embryonic patterning and tissue development","description":"GO terms point to embryonic development and patterning across tissues (muscle, cartilage, pancreas, PNS, placenta) including left-right axis formation and primitive streak, with regulatory processes (transcriptional regulation, ubiquitination) indicating tight developmental control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":4},{"id":"GO:0051216","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0048935","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1031694838839440379","title":"Collagen Matrix Formation and ECM Remodeling","description":"The top terms are dominated by collagen fibril organization and collagen biosynthetic process, plus proteoglycan catabolic processes and integrin-mediated adhesion, all central to the extracellular matrix (ECM) structure and remodeling. VEGF signaling and the ovulation term further point to ECM remodeling and associated angiogenesis in tissue contexts. Together, these suggest a cohesive theme of collagen/ECM assembly and remodeling rather than a single signaling pathway.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0000186","count":5},{"id":"GO:2000418","count":5},{"id":"GO:0030167","count":5},{"id":"GO:0032964","count":5}]},{"hash":"1747246253155978507","title":"Developmental Signaling and Morphogenesis","description":"This cluster includes GO terms tied to development (angiogenesis, nervous system development, outer ear morphogenesis, orbitofrontal cortex development) and signaling pathways (STAT phosphorylation, FGFR signaling, MAPK activity) along with vitamin D3 metabolic processes. Together these terms suggest proteins involved in developmental signaling and tissue morphogenesis across multiple lineages.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0070640","count":4},{"id":"GO:0042523","count":4},{"id":"GO:0002371","count":4}]},{"hash":"1614031540571910836","title":"Lipid remodeling and mitochondrial energy metabolism","description":"The cluster centers on lipid remodeling pathways\u2014phosphatidylcholine and cardiolipin remodeling, PAF biosynthesis, and related lipid biosynthetic control\u2014along with mitochondrial ATP synthesis via oxidative phosphorylation. This combination points to a theme of lipid metabolism closely tied to mitochondrial energy production. Some annotations (IL-2 production, T cell death regulation, plant cutin biosynthesis) appear as less cohesive or cross-species signals but do not overturn the dominant lipid/mitochondrial focus.","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0036151","count":2},{"id":"GO:0070970","count":2},{"id":"GO:0006663","count":2}]},{"hash":"1254305320741500174","title":"Mitotic cell cycle and vesicle trafficking","description":"This cluster is dominated by cell cycle and mitosis-related GO terms (cell division, mitotic cell cycle, mitotic cytokinesis, cell cycle) while also showing strong signals for intracellular trafficking and endosome/lysosome pathways (intralumenal vesicle formation, endosome to lysosome transport, late endosomal microautophagy, Golgi retention). The combination suggests a set of proteins involved in coordinating cell division with membrane trafficking and organelle remodeling, rather than a single isolated function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0045053","count":3},{"id":"GO:0070676","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0071276","count":2}]},{"hash":"1650895073591074334","title":"Neural Development and Cadherin-Mediated Adhesion","description":"The top GO terms strongly suggest roles in nervous system formation and synaptic organization (nervous system development, positive regulation of synapse assembly, neuronal stem cell maintenance). The frequent cadherin-related terms (cell-cell adhesion mediated by cadherin, calcium-dependent cell-cell adhesion, homophilic/heterophilic adhesion) indicate a cluster of adhesion molecules important for neural tissue morphogenesis and synapse formation. The vascular and ossification terms may reflect shared adhesion pathways, but the core theme centers on neural development and cadherin-mediated cell adhesion.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0001955","count":5}]},{"hash":"2073994998367066136","title":"GPCR Signaling and Cytoskeletal Dynamics","description":"The cluster shows multiple GO terms tied to GPCR function and trafficking (GTPase activity regulation, GPCR internalization, opsin-mediated signaling) along with cytoskeletal remodeling processes (formin-nucleated actin cable assembly, focal adhesion assembly). Development-related terms (heart development, forebrain neuroblast division) suggest roles in developmental signaling. Together, these indicate a coherent theme of GPCR-mediated signaling linked to actin/focal adhesion dynamics during development and sensory cell function.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0022400","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0002031","count":3}]},{"hash":"997495006832812784","title":"Mitochondrial Lipid Remodeling and Immune Signaling","description":"The cluster centers on lipid metabolism and remodeling (triglyceride biosynthesis; phosphatidylcholine and cardiolipin remodeling; platelet activating factor biosynthesis) with connections to mitochondrial energy production (ATP synthesis). The presence of interleukin-2 production and T-cell activation regulation suggests an immune signaling component linked to these lipid processes, despite some noise from plant-related terms. Overall, it points to a theme of mitochondrial lipid remodeling intersecting with immune regulation.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":6},{"id":"GO:0036151","count":5},{"id":"GO:0070970","count":5},{"id":"GO:0006663","count":5},{"id":"GO:0010143","count":5}]},{"hash":"867690434877890886","title":"RNA processing and transcription machinery","description":"This cluster is mainly characterized by RNA processing and splicing-related terms (mRNA processing, RNA splicing, spliceosomal tri-snRNP complex assembly) and transcription by RNA polymerase II, suggesting a core RNA-processing group. The other terms (neuronal development, actin nucleation, lysosomal secretion, meiosis-related processes) appear as outliers or broader cellular connections, but do not define a single cohesive function. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061551","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0006397","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1}]},{"hash":"1348739704282362177","title":"Immune-metabolic regulation","description":"This cluster centers on a mix of metabolic-related processes (energy homeostasis, insulin signaling, cholesterol storage) and immune/modulatory signals (macrophage activation, TLR4 signaling regulation, myeloid progenitor proliferation, estrogen response). The repeated emphasis on regulatory roles across both metabolic and immune pathways suggests a cohesive theme of immune-metabolic regulation rather than a single, narrow function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090341","count":7},{"id":"GO:2000505","count":7},{"id":"GO:0061469","count":7},{"id":"GO:0034144","count":7},{"id":"GO:0035053","count":7}]},{"hash":"909211698231066774","title":"GPCR-Mediated Vascular Permeability and Neutrophil Signaling","description":"These proteins cluster around G protein-coupled receptor signaling pathways (GPCR signaling, opsin signaling, adenosine receptor signaling) and functions that regulate vascular permeability and neutrophil responses (neutrophil chemotaxis, neutrophil-mediated killing, IL-1\u03b2 production). The combination points to a cohesive theme of GPCR-driven signaling influencing vascular integrity and innate immune activity, with a nod to smooth muscle contexts suggested by enteric differentiation terms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":7},{"id":"GO:1903141","count":7},{"id":"GO:0016056","count":7},{"id":"GO:0007202","count":7},{"id":"GO:0010579","count":7}]},{"hash":"843700517811581447","title":"Vascular coagulation and ECM remodeling","description":"These proteins cluster around vascular biology: coagulation and fibrinolysis (Factor XII activation, plasminogen activation, positive regulation of fibrinolysis, blood coagulation), endothelial barrier maintenance (positive regulation of establishment of endothelial barrier), and extracellular matrix remodeling (elastin catabolic process). Additional terms hint at innate immune signaling in vessels (complement activation, lectin pathway; Toll signaling) and tissue development, consistent with vascular homeostasis and remodeling. Overall, the dominant theme is the coordination of coagulation, barrier function, and ECM remodeling in the vasculature.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903142","count":1},{"id":"GO:0030194","count":1},{"id":"GO:0002542","count":1},{"id":"GO:0060309","count":1},{"id":"GO:0051919","count":1}]},{"hash":"2181240055816617463","title":"Synaptic adhesion and tissue morphogenesis","description":"The cluster is enriched for GO terms related to synapse assembly and neuron cell-cell adhesion, with additional clues from homophilic/heterophilic adhesion and terms tied to planar polarity and morphogenesis in various tissues (endothelial barrier, hair orientation, lung morphogenesis). This suggests a common theme of cell-cell adhesion processes guiding tissue development, including neural connectivity, hence the label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:1903142","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0060488","count":4},{"id":"GO:0048105","count":4}]},{"hash":"1711257772584590734","title":"NF-\u03baB-driven inflammatory and survival signaling","description":"These proteins show enrichment in terms related to NF-\u03baB signaling (canonical and general), PI3K/AKT pathway activation, autophagy regulation, and inflammatory responses (e.g., LPS signaling), with some links to angiogenesis and anti-apoptotic regulation. The common theme is signaling networks that promote inflammation and cell survival, centered on NF-\u03baB pathways, rather than a single enzymatic function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0051092","count":1},{"id":"GO:0045766","count":1},{"id":"GO:0043123","count":1}]},{"hash":"1050091104045249724","title":"Oxidative stress response and redox homeostasis","description":"This cluster is dominated by GO terms related to maintaining redox balance and detoxifying oxidants, including cellular redox homeostasis and cellular responses to oxidative stress, pointing to a core oxidative biology theme. A few terms (e.g., neural crest cell migration in heart formation, and transcriptional regulation-related processes) appear less directly connected and may reflect broader or pleiotropic associations, but the redox/oxidative stress signals are prominent enough to define the cluster.","confidence":"Medium","size":8,"edges":17,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0071473","count":3},{"id":"GO:0003147","count":3}]},{"hash":"1163977894813131502","title":"DNA Damage Response and Embryogenesis","description":"The cluster includes strong DNA repair signals (base-excision repair, nucleotide-excision repair, DNA incision) and DNA-damage\u2013induced apoptotic signaling, plus developmental processes (left/right pattern formation, placental and trophoblast differentiation, endocrine system development, multicellular organism growth, pancreatic cell development). This suggests proteins balancing genome maintenance with embryonic development, yielding a DNA damage response coupled to embryogenesis theme.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0033683","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060972","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060806","count":6}]},{"hash":"1001907737077728144","title":"Embryonic Neural and Craniofacial Morphogenesis","description":"The cluster\u2019s top GO terms cluster around embryonic development and morphogenesis, especially neural development (trochlear and oculomotor nerve formation, olfactory bulb interneuron differentiation) and craniofacial/tissue morphogenesis (embryonic cranial skeleton, middle ear morphogenesis, leg patterning). A supporting term notes transcriptional regulation, suggesting regulatory factors active during development. Together, these signals point to a cohesive theme of embryonic neural and craniofacial morphogenesis with transcriptional control.","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:2000836","count":3},{"id":"GO:0021642","count":3},{"id":"GO:0060441","count":3},{"id":"GO:0021889","count":3}]},{"hash":"1065344229862592664","title":"Semaphorin-Plexin Axon Guidance","description":"The top terms are centered on axon guidance and neural projection, notably semaphorin-plexin signaling and various neuron projection guidance processes (commissural, sympathetic, dorsal root ganglion). This suggests the cluster groups proteins involved in axon navigation and neural morphogenesis, with a few unrelated terms likely reflecting noise. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1902287","count":4},{"id":"GO:0071679","count":4},{"id":"GO:0048843","count":4},{"id":"GO:0018996","count":4},{"id":"GO:0097491","count":4}]},{"hash":"261842222763924576","title":"Vertebrate embryonic morphogenesis and organogenesis","description":"The top GO terms cluster around developmental processes in vertebrates\u2014notochord development, nephric duct morphogenesis, cloacal septation, and cerebellum organization\u2014pointing to embryonic morphogenesis and organ formation as the overarching theme. While some terms are more general (cell cycle, microvillus localization, pain response), the dominant pattern supports a developmental/organogenesis focus.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904106","count":2},{"id":"GO:0021589","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0030862","count":2},{"id":"GO:0060197","count":2}]},{"hash":"2006256559985032601","title":"Neuronal synapse formation and lipid transport regulation","description":"Top GO terms point to neural development and synaptic organization (positive regulation of presynaptic membrane organization; positive regulation of dendritic spine maintenance) and FGFR signaling, with brain-specific lipid transport regulation (lipid transport across the blood-brain barrier). Together these suggest proteins involved in CNS synapse formation and lipid handling at the BBB; outlier terms like spermatid development appear peripheral to this core theme.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1902999","count":2},{"id":"GO:1905855","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0008543","count":2},{"id":"GO:1903002","count":2}]},{"hash":"2301911549399860046","title":"Purine Nucleotide Metabolism","description":"Top GO terms are dominated by nucleotide metabolism and salvage: nucleoside monophosphate phosphorylation, CDP biosynthesis, purine ribonucleotide interconversion, and ITP metabolism. A few development terms (brain, liver, blastocyst development) appear but likely reflect broader gene roles or annotation overlap; overall the cluster coherently points to purine nucleotide biosynthesis and interconversion processes.","confidence":"Medium","size":7,"edges":14,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0001889","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0015951","count":3}]},{"hash":"568791847150085818","title":"Skeletal morphogenesis and neural signaling","description":"The GO terms cluster around developmental processes: embryonic cranial skeleton morphogenesis and bone mineralization regulation point to skeletal development, while growth hormone receptor signaling, axon regeneration regulation, protein localization to synapse, and receptor clustering point to neural signaling and synaptic organization; the inclusion of cell polarity establishment supports broader developmental patterning. Together they indicate a development/morphogenesis-focused cluster rather than a single, specific pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0030500","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0048679","count":2},{"id":"GO:0048701","count":2}]},{"hash":"1347581291617893519","title":"Ectodermal Development and Neural Signaling","description":"This cluster centers on developmental processes of ectodermal tissues (hair follicles, salivary glands) and neural systems, with involvement of ERK and canonical Wnt pathways and processes related to neuron survival and nervous system formation. The convergence on hair follicle morphogenesis, salivary gland development, and nervous system development supports a cohesive label around ectodermal/neural development and signaling.","confidence":"High","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060501","count":4},{"id":"GO:0060661","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0070374","count":4}]},{"hash":"2018108712243750668","title":"Diverse biosynthetic and metabolic processes","description":"Top GO terms show multiple biosynthetic pathways (antibiotic biosynthesis; sphingolipid and fatty acid elongation; glucocorticoid and polyhydroxybutyrate biosynthesis) and retinal metabolism, plus a regulation of transcription and sporulation term. This points to proteins involved in various biosynthetic/metabolic activities with some regulatory context, rather than a single specific pathway. Therefore a broad label for biosynthesis/metabolism is appropriate.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0042574","count":5},{"id":"GO:0030148","count":5},{"id":"GO:0006355","count":5},{"id":"GO:0042619","count":5}]},{"hash":"344167286103978773","title":"DNA replication and chromatin regulation","description":"The dominant GO terms cluster around nuclear DNA maintenance and chromosome dynamics: DNA repair, DNA replication, DNA-templated transcription, mitotic cell cycle, and chromosome condensation-related histone modification terms. A few metabolic terms appear but are less represented, so the core theme is DNA replication/repair coupled with chromatin regulation during the cell cycle.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0000212","count":4}]},{"hash":"916882964004619815","title":"Proteostasis and gene expression machinery","description":"The terms point to protein quality control (ubiquitin-dependent ERAD, aggresome assembly) and general protein processing, alongside core gene expression steps (mRNA export, translation, transcription preinitiation complex assembly). A related signal appears for mitochondrial energy metabolism (oxidative phosphorylation), suggesting the cluster centers on proteostasis with links to transcription/translation and energy production.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0070842","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0034551","count":1}]},{"hash":"14359190413213092","title":"Glycosylation and glycosphingolipid biosynthesis","description":"The top GO terms are dominated by glycosylation-related processes\u2014protein glycosylation, glycosphingolipid biosynthesis, and protein sialylation\u2014pointing to roles in carbohydrate modification and glycoconjugate assembly. A few outliers exist (e.g., angiotensin signaling, brain segmentation), but the recurring glycan-related annotations support a cohesive theme of glycosylation/glycan biosynthesis.","confidence":"High","size":7,"edges":11,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0038166","count":2},{"id":"GO:0006486","count":1},{"id":"GO:0006049","count":1},{"id":"GO:0035284","count":1},{"id":"GO:0035010","count":1}]},{"hash":"1881560436550881631","title":"Embryonic craniofacial and neural morphogenesis","description":"The top GO terms cluster around morphogenesis of cranial and neural structures (cranial skeleton, trochlear/oculomotor nerves, olfactory neurons) and related organs (lung, middle ear, pancreas), with transcriptional regulation suggesting coordinated developmental control.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:2000836","count":3},{"id":"GO:0021642","count":3},{"id":"GO:0060441","count":3},{"id":"GO:0021889","count":3},{"id":"GO:0021623","count":3}]},{"hash":"1179256564872254785","title":"Unknown","description":"The terms span multiple distinct metabolic pathways and signaling responses (ethanol and fatty acid metabolism, lignin synthesis, retinoic acid metabolism, copper response) with no single shared function, making a coherent cluster label hard.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006068","count":7},{"id":"GO:1900116","count":7},{"id":"GO:0003016","count":7},{"id":"GO:0033859","count":7},{"id":"GO:0042573","count":7}]},{"hash":"1526583994972589787","title":"Mitotic spindle assembly and chromosome segregation","description":"The top GO terms cluster around mitosis and cell division: cell cycle, mitotic sister chromatid biorientation, attachment of spindle microtubules to kinetochores, actomyosin contractile ring maturation for cytokinesis, and septation initiation signaling. While a couple terms are more general (mRNA capping, phosphorylation regulation), the dominant theme is mitotic progression and chromosome segregation. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:2000808","count":5},{"id":"GO:0044387","count":5},{"id":"GO:0006370","count":5},{"id":"GO:1902406","count":5}]},{"hash":"1100875528468295660","title":"Developmental processes and signaling","description":"This cluster is dominated by GO terms about development (brain, skin, multicellular organism development) and regulation of signaling activities (kinase and GTPase regulation, autophosphorylation), with related processes like mRNA transport and protein oligomerization. The proteins appear to participate in broader developmental regulation and signaling rather than a single, tight pathway, so a developmental signaling label is appropriate though not definitive.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007064","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0031954","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0071902","count":4}]},{"hash":"515718500779389026","title":"BMP/TGF-\u03b2 and NF-\u03baB signaling regulators","description":"The GO terms cluster around regulation of BMP signaling and TGF-\u03b2 receptor signaling (including SMAD regulation and negative NF-\u03baB signaling), plus related processes like dephosphorylation and nuclear export, pointing to proteins that modulate signaling cascades and trafficking. An outlier term about photosystem stoichiometry is noted, but the dominant pattern is signaling regulation.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042006","count":5},{"id":"GO:0030514","count":5},{"id":"GO:0010991","count":5},{"id":"GO:0080005","count":5},{"id":"GO:0035970","count":5}]},{"hash":"479348992905397481","title":"B cell signaling with Rho-ERK regulation","description":"This cluster centers on B cell receptor signaling and regulatory networks involving Rho GTPases, GTPase activity modulation, and ERK cascade control, with supporting signals from IP3/Ca2+ pathways and cytoskeletal-related processes like phagocytosis and differentiation. The mix of B cell-specific terms (B cell receptor signaling, follicular B cell differentiation) and GTPase/ERK pathway regulation suggests a coherent theme around B cell signal transduction and cytoskeletal modulation.","confidence":"Medium","size":7,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0070373","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0046580","count":5}]},{"hash":"853598311569924280","title":"Actin-driven cell spreading and polarity","description":"The top GO terms cluster around actin cytoskeleton dynamics and polarity-related processes: actin filament branching, podosome assembly, adhesion-dependent cell spreading, and establishment/maintenance of epithelial cell polarity and cell shape, with additional links to phagocytosis and T cell signaling. These themes point to coordinated actin remodeling governing cell adhesion, spread, and polarity across cell types.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0034260","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0071803","count":6}]},{"hash":"2260373608786368197","title":"Transmembrane Transporters (ions and sugars)","description":"Top GO terms are dominated by various transmembrane transport processes, including chloride, bicarbonate, fructose, aspartate, and oxalate transport, suggesting the cluster is enriched for membrane transporter proteins handling small molecules. Some terms (sporulation, sensory perception of sound, transcription regulation) are present but less central to the primary theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1902476","count":4},{"id":"GO:0030435","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0048240","count":3},{"id":"GO:0015755","count":3}]},{"hash":"631411446370207325","title":"DNA Replication and Mitosis Machinery","description":"The cluster is dominated by GO terms tied to DNA replication, regulation of the nuclear cell cycle, and mitotic processes (DNA replication, positive regulation of nuclear cell cycle DNA replication, mitotic cell cycle, centrosome cycle). This points to core cell-cycle and replication machinery. A few terms relate to development or RNA processing (embryonic cranial skeleton morphogenesis, hippocampus development, spliceosome changes) that may reflect pleiotropic roles or annotation noise rather than a primary function of the cluster.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0048701","count":5},{"id":"GO:0010571","count":4},{"id":"GO:0007098","count":4},{"id":"GO:1990416","count":4}]},{"hash":"2249203850427571713","title":"Dopamine/Adrenergic GPCR Signaling","description":"The cluster centers on GPCR signaling triggered by dopamine and adrenergic receptors, including both adenylate cyclase and phospholipase C pathways. The presence of terms like heart development, phototransduction, and regulation of GTPase activity suggests these proteins participate in broader GPCR-driven signaling affecting development and cell cycle.","confidence":"High","size":7,"edges":8,"triangles":4,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":6},{"id":"GO:0060158","count":6},{"id":"GO:0071880","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0043950","count":6}]},{"hash":"1041515433995560247","title":"Mitotic cell cycle and ER-Golgi vesicle trafficking","description":"The cluster is enriched for mitosis-related processes (cell division, mitotic cell cycle, mitotic spindle assembly, cell population proliferation) and for ER-Golgi trafficking (COPII vesicle budding, retrograde Golgi-to-ER transport, ER-to-Golgi transport), suggesting a coordinated program of cell division with the secretory pathway during development.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1005290365822764472","title":"Nucleocytoplasmic Transport","description":"The cluster is dominated by terms related to nuclear import/export, including ribosomal protein import into the nucleus, ribosomal subunit export from the nucleus, NLS-bearing protein import, and mRNA export. These point to a shared function in trafficking molecules between the nucleus and cytoplasm. Additional terms touch on related nuclear processes (centrosome duplication, desumoylation) and regulation of GTPase activity, which can be connected to trafficking regulation. Overall, the central theme is nucleocytoplasmic transport and associated regulation.","confidence":"Medium","size":7,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0010824","count":4},{"id":"GO:0043547","count":4}]},{"hash":"591481807488269996","title":"Translational Initiation and RNA Processing","description":"Most proteins in this cluster are linked to the initiation and regulation of translation (formation of the translation preinitiation complex, translation reinitiation, and regulation of translational initiation). Additional enrichment for RNA processing activities (spliceosome-mediated splicing) and mRNA maturation is present, with a few development-related terms that may reflect pleiotropic roles. The dominant theme is translational control with supporting RNA processing, suggesting the label Translation Initiation and RNA Processing.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0051402","count":3}]},{"hash":"350357761645025225","title":"Neural development and axonogenesis","description":"This cluster is enriched in neural development terms, including peripheral nervous system neuron axonogenesis, midbrain dopaminergic neuron differentiation, and ventral spinal cord interneuron specification, suggesting a core theme of neuronal differentiation and axon formation. The presence of actin filament depolymerization aligns with cytoskeletal remodeling needed for neurite outgrowth, supporting a neural-development focus, though several endocrine/organ development terms are present as well, which introduces some non-neural signals. Overall, neural development and axonogenesis is the most representative single theme given the strongest, most frequent terms.","confidence":"Medium","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048936","count":7},{"id":"GO:0030042","count":7},{"id":"GO:0060396","count":7},{"id":"GO:0061205","count":7},{"id":"GO:0010735","count":7}]},{"hash":"1467651155977250567","title":"Developmental cell adhesion and differentiation","description":"The top GO terms emphasize cell\u2013cell and substrate adhesion (receptor clustering, heterophilic adhesion, adhesion-dependent spreading) together with developmental differentiation into endoderm, brown fat, and vasculature, suggesting a role in developmental adhesion linked to lineage specification. Some terms (ubiquitination, cytokinesis) are less central but do not overturn the main theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0034446","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0050873","count":2}]},{"hash":"373582660405912743","title":"Immune activation and leukocyte migration","description":"This cluster is dominated by GO terms for innate and adaptive immune responses, plus processes like neutrophil extravasation and regulation of receptor signaling, which together point to immune activation and controlled leukocyte trafficking. The presence of proteolysis and axon guidance/synapse assembly hints at extracellular remodeling and signaling roles that can accompany immune cell movement, further supporting a theme of immune modulation with cell migration. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0010765","count":3},{"id":"GO:1900121","count":3},{"id":"GO:0046007","count":3},{"id":"GO:0051965","count":3}]},{"hash":"1429205305662306513","title":"Ubiquitin-proteasome turnover and Wnt signaling regulators","description":"This cluster is enriched for post-translational modification and protein turnover (deubiquitination, proteasomal degradation, deglycosylation) and includes links to Wnt signaling (planar cell polarity and canonical pathway regulation). These together suggest a coherent theme of proteins involved in modifying proteins for signaling outcomes, with some metabolic and inflammatory regulation context. The presence of both PTM/degradation terms and Wnt pathway terms supports naming it as regulators of ubiquitin-proteasome turnover and Wnt signaling.","confidence":"Medium","size":7,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0072378","count":2},{"id":"GO:0010043","count":1}]},{"hash":"2166899203430854702","title":"RNA Processing Proteins","description":"The GO terms cluster around RNA maturation\u2014mRNA processing, tRNA processing, and primary miRNA processing\u2014plus RNA cleavage activities, indicating a core role in RNA biogenesis. Peripheral terms (developmental and virus-related) are likely secondary annotations, but the dominant theme is RNA processing.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0007318","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0042474","count":1}]},{"hash":"1654229906580281276","title":"Unknown","description":"The terms are highly heterogeneous: fertilization-related terms (sperm-egg recognition, fusion, fertilization) appear, but are mixed with unrelated processes such as retina homeostasis, lactose biosynthesis, inflammatory and antimicrobial responses, and cytolysis. This lack of a single overarching function suggests no coherent cluster-level function can be inferred.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":3},{"id":"GO:0001895","count":2},{"id":"GO:0005989","count":2},{"id":"GO:0035036","count":2},{"id":"GO:0007342","count":2}]},{"hash":"1280046393100176379","title":"JNK-driven immune and apoptotic signaling","description":"Top GO terms cluster around JNK cascade regulation, innate/adaptive immune responses, apoptosis, phagocytosis, and cytoskeletal remodeling, suggesting a shared role in stress- and immune-induced signaling leading to cell death and clearance.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0006915","count":3},{"id":"GO:1900026","count":2}]},{"hash":"711262598226765902","title":"Neural development and synaptic signaling","description":"The terms are dominated by neural processes: sensory perception of pain, response to cocaine, positive regulation of synapse assembly, GPCR signaling, and Rho signaling, all pointing to neuronal communication and cytoskeletal dynamics. Layer formation in the cerebral cortex strongly supports a cortical development theme, while a few terms relate to metabolism and vascular biology that can accompany neural activity. Overall, the cluster appears best characterized by neural development and synaptic signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0010579","count":3},{"id":"GO:0035025","count":3}]},{"hash":"228927563737135591","title":"ECM remodeling and angiogenesis","description":"This cluster is dominated by GO terms related to extracellular matrix remodeling and vascular biology, including fibrinolysis (uPA), collagen biosynthesis and collagen fibril organization, and angiogenesis, all of which intertwine in tissue remodeling and new blood vessel formation. Additional signals like EGFR pathway regulation may modulate these processes, but the core theme is ECM turnover and angiogenic activity.","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":2},{"id":"GO:0045742","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0030199","count":2}]},{"hash":"621817536056243304","title":"GPCR signaling in inflammation and vascular permeability","description":"Proteins in this cluster appear enriched for G protein-coupled receptor (GPCR) signaling, including adenosine receptor pathways, and for downstream inflammatory and vascular responses such as neutrophil recruitment, IL-1\u03b2 production, and regulation of vascular permeability. This points to a coherent GPCR-driven inflammatory module coordinating endothelial-immune interactions.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":7},{"id":"GO:1903141","count":7},{"id":"GO:0016056","count":7},{"id":"GO:0007202","count":7},{"id":"GO:0010579","count":7}]},{"hash":"2212301967326392962","title":"Angiogenesis and ECM remodeling","description":"This cluster centers on vascular development and extracellular matrix (ECM) dynamics, with terms spanning aorta and coronary vasculature development, elastic fiber assembly, and hyaluronan biosynthesis. The inclusion of mechanical-stimulus response and inflammatory/LPS responses suggests remodeling of vessels under biomechanical and inflammatory cues, fitting well with angiogenesis and ECM remodeling processes.","confidence":"High","size":7,"edges":11,"triangles":3,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0048251","count":4},{"id":"GO:1900127","count":4},{"id":"GO:0035904","count":4},{"id":"GO:0060976","count":4}]},{"hash":"1847560262788168836","title":"B cell development and germinal center regulation","description":"The top GO terms point to B cell homeostasis, lymph node development, and V(D)J recombination, with germinal center formation and NF-kappaB signaling. Together these indicate proteins involved in B cell lineage development, activation, and germinal center dynamics, despite some auxiliary terms on organelle fission and ubiquitin-mediated proteolysis.  ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001782","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0016559","count":2},{"id":"GO:0007250","count":1}]},{"hash":"272823807977517189","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0046653","count":3},{"id":"GO:0051412","count":3},{"id":"GO:0006210","count":3},{"id":"GO:0019483","count":3},{"id":"GO:0034720","count":3}]},{"hash":"68195533215022369","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental programs across tissues and organs (pancreatic development, left/right patterning, trophoblast/placental differentiation, muscle and cartilage morphogenesis, EMT in heart development, endocrine system development). This points to a cohesive role in embryogenesis and organ formation rather than a single pathway.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1643625589122667809","title":"Developmental Processes","description":"Proteins in this cluster show enrichment for GO terms tied to development across multiple tissues, notably brain development, visual perception, uterus development, and cell growth.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007049","count":1}]},{"hash":"1659103837003009035","title":"Ubiquitin-dependent proteostasis in muscle","description":"This cluster is dominated by GO terms for ubiquitin-mediated protein catabolism and aggresome assembly, pointing to proteostasis and protein quality control. Additional terms touch on muscle biology (negative regulation of myotube differentiation; calcium release from the sarcoplasmic reticulum; regulation of atrial cardiac muscle cell action potential) and signaling pathways (NF-kappaB-inducing kinase activity; SMAD-related phosphorylation). Taken together, the proteins appear tied to ubiquitin-driven turnover that intersects with muscle differentiation and excitation-contraction signaling, justifying a label around muscle proteostasis and signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0036353","count":5},{"id":"GO:0070842","count":5},{"id":"GO:0007182","count":4},{"id":"GO:0007250","count":4}]},{"hash":"2134455818309263351","title":"Transmembrane Transport and Lipid Metabolism","description":"These proteins predominantly relate to membrane-associated functions: several GO terms point to various forms of transport across membranes (sodium, carbohydrate, glucose, and general transmembrane transport) and to vacuolar/endosomal trafficking (late endosome to vacuole via MVB sorting). Lipid-related processes are also represented (ether lipid metabolic process, dolichol-linked oligosaccharide biosynthesis), which ties into membrane biology. One outlier term (lens development) appears to be annotation noise and does not reflect the core theme. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046485","count":1},{"id":"GO:0032511","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0008643","count":1},{"id":"GO:0055085","count":1}]},{"hash":"117838326081924130","title":"Brain ion transport and CSF regulation","description":"The terms cluster around ion transport (bicarbonate, chloride), fluid transport, and cerebrospinal fluid secretion, plus regulation of brain-related physiology like blood pressure. A few neural development terms appear, but they are less consistent with the main theme. Given the sparse connections and mixed terms, the label reflects the strongest recurring pattern: brain ion transport and CSF regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051453","count":1},{"id":"GO:0010036","count":1},{"id":"GO:0015701","count":1},{"id":"GO:0035445","count":1},{"id":"GO:0048854","count":1}]},{"hash":"286869012297346205","title":"Innate immune response with NF-kB and NOD regulation","description":"The cluster is enriched for innate immune terms (innate immune response, defense against Gram-negative and Gram-positive bacteria, IL-1\u03b2 production) and regulatory signaling (negative regulation of canonical NF-kappaB signaling and NOD-like receptor signaling). This points to a module of proteins involved in initiating and tuning inflammatory responses. Additional terms about proteasomal degradation and RNA methylation may reflect regulatory layers controlling immune signaling. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0070433","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0032611","count":2}]},{"hash":"1562225019701737827","title":"DNA Damage Response and Mitochondrial Oxidative Stress","description":"The terms cluster around genome maintenance (error-free translesion synthesis, mitotic DNA replication checkpoint signaling, cell division) and mitochondrial/redox processes (complex III assembly, oxidative phosphorylation regulation, FAD catabolic process, cellular response to oxidative stress). This suggests a shared theme where DNA damage tolerance and cell-cycle control are coordinated with mitochondrial function and oxidative stress responses. ","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070987","count":4},{"id":"GO:0034551","count":3},{"id":"GO:0072389","count":3},{"id":"GO:0016485","count":3},{"id":"GO:0045899","count":3}]},{"hash":"1800211438334040688","title":"Neural development and myelination","description":"This cluster is dominated by nervous system\u2013related terms (nervous system development, neurogenesis, myelination) and glial differentiation (astrocyte differentiation) along with regulation of myoblast differentiation, suggesting a cohesive theme of neural lineage progression and myelin formation. Some terms point to non-neural tissues (notochord, kidney development, nephric duct morphogenesis, hemidesmosome assembly, striated muscle filament assembly), which may reflect broader developmental processes or annotation spillover. Overall, the core signal aligns with neural development and myelin-related functions.","confidence":"Medium","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0022008","count":6},{"id":"GO:0042552","count":6},{"id":"GO:0045663","count":6},{"id":"GO:0048711","count":4}]},{"hash":"755043740214909525","title":"Multi-tissue organogenesis and morphogenesis","description":"The proteins appear linked to broad developmental processes across multiple tissues (nervous system, kidney/notochord, muscle) plus adhesion and channel organization, indicating a shared theme of organogenesis and tissue morphogenesis rather than a single, cohesive pathway.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0071688","count":5},{"id":"GO:0060035","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0072178","count":5}]},{"hash":"408128395019907144","title":"Neural development and cell cycle regulation","description":"The top terms show a blend of neuronal development (hippocampus development, axon extension, excitatory postsynaptic potential) and cell cycle/DNA replication (DNA replication, mitotic cell cycle, centrosome cycle, positive regulation of nuclear DNA replication). This pattern suggests proteins coordinating neural differentiation with proliferation during development, reflecting progenitor cells progressing toward maturation with cell cycle control. The cranial skeleton morphogenesis term adds broader developmental context but may relate to neural crest\u2013derived lineages.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0010571","count":4},{"id":"GO:0007098","count":4},{"id":"GO:0060079","count":3}]},{"hash":"1382738354958080291","title":"Actin dynamics and sarcomere assembly","description":"Proteins show strong enrichment for actin cytoskeleton dynamics and muscle/contractile functions: Arp2/3-mediated actin nucleation, sarcomere organization, and skeletal muscle thin filament assembly, plus mitotic actomyosin ring formation and cytokinesis, with mesenchyme migration also tied to actin remodeling. This supports a label focused on actin remodeling and sarcomeric assembly.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090131","count":6},{"id":"GO:0034314","count":6},{"id":"GO:0030240","count":6},{"id":"GO:0009825","count":6},{"id":"GO:1903475","count":6}]},{"hash":"1829912984874723333","title":"Unknown","description":"The GO terms shown are highly diverse, including carbohydrate metabolism, cellulose breakdown, receptor recycling, neural and cognitive processes, various development pathways, plant hormone signaling, lipid catabolism, and chemical responses. There is no clear single function tying these terms together, and they span multiple biological kingdoms, suggesting the proteins do not share a cohesive role. Edges are few, Triangles are zero, and the overall signal is miscellaneous, supporting an Unknown label.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0030245","count":2},{"id":"GO:0001919","count":2},{"id":"GO:0042136","count":2},{"id":"GO:0007612","count":2}]},{"hash":"1919555590029952432","title":"Unknown","description":"The enriched GO terms span ethanol and fatty acid metabolism, retinoic acid and lignin biosynthesis, copper response, and extracellular signaling regulation, which do not point to a single cohesive function or pathway across all proteins. A unifying function is not evident, so a specific label cannot be confidently assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006068","count":3},{"id":"GO:1900116","count":3},{"id":"GO:0003016","count":3},{"id":"GO:0033859","count":3},{"id":"GO:0042573","count":3}]},{"hash":"234484810816039591","title":"Large subunit ribosome assembly","description":"This cluster is best described by ribosome biogenesis, centered on assembly of the large subunit preribosome and LSU rRNA maturation, with supporting signals of energy/metabolic and stress response processes that appear less defining.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0009408","count":1},{"id":"GO:0006754","count":1},{"id":"GO:0071872","count":1}]},{"hash":"598578542714232889","title":"Steroid hormone biosynthesis and lipid metabolism","description":"The top terms center on steroid hormones (androgen metabolic process, testosterone biosynthetic process, glucocorticoid biosynthetic process) and broad lipid metabolism (retinal metabolism, sphingolipid biosynthesis, fatty acid elongation), suggesting a cohesive function around lipid-derived hormone production and related lipid biosynthesis. Some terms (lung development, transcription regulation) are broader but do not override the lipid/hormone-focused theme. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0042574","count":2},{"id":"GO:0030148","count":2}]},{"hash":"1656439361584552019","title":"Bacterial Quinone Biosynthesis and Metabolic Pathways","description":"This cluster centers on two specific quinone biosynthesis processes (phylloquinone and menaquinone) while also including diverse metabolic activities such as fatty acid beta-oxidation, phenylacetate and valine catabolism, and antibiotic biosynthesis. The strongest shared theme is bacterial metabolism with a emphasis on quinone biosynthesis and associated energy/redox-related pathways.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":6},{"id":"GO:0042372","count":6},{"id":"GO:0006635","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0006574","count":6}]},{"hash":"806488920938457418","title":"Cell cycle and DNA replication","description":"The cluster is strongly enriched for GO terms related to cell division, the mitotic cell cycle, and DNA replication, indicating a role in chromosome duplication and cell cycle progression. Additional terms about vesicle trafficking are present but secondary to the core replication/division signals, supporting a primary function in cell cycle machinery with related cellular processes. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:1902188","count":2},{"id":"GO:0070389","count":2},{"id":"GO:1903542","count":2}]},{"hash":"1898615201320061335","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0006398","count":2},{"id":"GO:0098789","count":2},{"id":"GO:0010849","count":1},{"id":"GO:0019061","count":1}]},{"hash":"1591215806128233375","title":"Spliceosome Regulation and Ribosome Biogenesis","description":"This cluster combines signals for both regulation of mRNA splicing via the spliceosome and processes involved in ribosome biogenesis and translation initiation, such as small-subunit processome assembly and translation initiation factor complex assembly, suggesting a shared theme of RNA maturation and translation control.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0000448","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0097010","count":2}]},{"hash":"36924532547052056","title":"Ribosome Biogenesis and Translation Initiation","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal large subunit biogenesis and export, and formation of the cytoplasmic translation initiation complex, indicating a shared role in ribosome assembly and initiation of protein synthesis. Some other terms (megagametogenesis, actin cytoskeleton organization, cell cycle) appear less central and may reflect annotation noise.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0009561","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0030036","count":1},{"id":"GO:0007089","count":1}]},{"hash":"1787792224622930758","title":"Actin Cytoskeleton and Muscle Contraction","description":"The cluster is enriched for terms related to actin dynamics (actin filament polymerization, actin polymerization/depolymerization), actomyosin contractility (mitotic contractile ring), and muscle function (skeletal muscle contraction, NMJ synaptic assembly regulation). This points to a theme of actin-driven cytoskeletal remodeling supporting muscle contraction and neuromuscular junction biology. Some other terms (e.g., DNA damage response, cocaine behavioral response) are less connected to this core theme, so the overall interpretation centers on cytoskeletal and muscle-related processes.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048148","count":3},{"id":"GO:0030041","count":3},{"id":"GO:1902404","count":2},{"id":"GO:0043517","count":2},{"id":"GO:0008154","count":2}]},{"hash":"339662329554836919","title":"NF-kappaB signaling and ubiquitin-dependent proteolysis","description":"This cluster is dominated by GO terms linking NF-kappaB pathway activation and regulation (canonical NF-kappaB signaling, IKK activation) and ubiquitin-mediated protein degradation, suggesting a group of proteins involved in immune signaling and proteostasis. While there are a couple of development and cardiac-related terms present, the NF-kappaB and ubiquitin-related terms provide the clearest, cohesive theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098910","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1300332291463598131","title":"Viral entry and proviral genome integration","description":"The top GO terms point strongly to virus-host interactions: symbiont entry into host cell, establishment of integrated proviral latency, and DNA integration. Those collectively describe the entry and genomic integration phase of a virus. Some additional terms about endosome transport and microvillus/brush border structures may reflect host pathways that viruses exploit or incidental annotations, but they do not override the core viral integration theme. Overall, the cluster seems best described as focusing on virus entry and proviral genome integration.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3},{"id":"GO:2000643","count":2},{"id":"GO:0032529","count":2}]},{"hash":"2004843468085499645","title":"Ubiquitin-Dependent Protein Degradation","description":"The top terms cluster around ubiquitination and ubiquitin-dependent degradation (polyubiquitination and ubiquitin-dependent protein catabolic processes) and ER-associated degradation (ERAD), with related terms like Wnt receptor catabolic process indicating receptor turnover via ubiquitin tagging. This suggests the proteins function in tagging and targeting substrates for proteasomal degradation, including ERAD pathways. Some terms are obsolete or peripheral, but the core signal is clear.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1129765056393083683","title":"Cell Cycle and Chromosome Dynamics","description":"The top GO terms point strongly to mitotic control and chromatin organization\u2014G2/M transition, meiotic spindle organization, and histone H3-S10 phosphorylation involved in chromosome condensation\u2014suggesting a core theme of cell cycle progression and chromosome dynamics. The other terms (sterol/vitamin D metabolism, lipid homeostasis, glycogen catabolism, apoptotic clearance, development) appear more peripheral to this core, possibly reflecting broader cellular roles rather than a single cohesive function of the cluster.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000086","count":6},{"id":"GO:0000212","count":3},{"id":"GO:0070640","count":3},{"id":"GO:0042523","count":3},{"id":"GO:2000775","count":3}]},{"hash":"1226260430275133949","title":"GTPase signaling and endosomal trafficking","description":"The terms cluster around small GTPase\u2013driven signaling (Ran, positive regulation of GTPase activity) and endosomal dynamics (regulation of endosome size, receptor recycling), extending to downstream effects on presynapse assembly and related signaling pathways. While some terms like visual perception or pheromone response are less directly connected, the core theme points to intracellular trafficking and signaling that modulates vesicle recycling and synaptic organization.","confidence":"Medium","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031291","count":6},{"id":"GO:0051036","count":6},{"id":"GO:0006547","count":6},{"id":"GO:0035330","count":6},{"id":"GO:0051301","count":6}]},{"hash":"1336577017790674000","title":"Bone and Enamel Biomineralization","description":"The cluster features GO terms tied to mineralization in bone and tooth (bone mineralization, ossification, osteoblast differentiation) as well as enamel formation (amelogenesis, ameloblast differentiation, enamel mineralization), plus extracellular matrix organization and cell adhesion. This cohesive pattern suggests a group of proteins involved in biomineralization and matrix assembly in skeletal and dental tissues.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":1},{"id":"GO:0071363","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0030198","count":1},{"id":"GO:0001649","count":1}]},{"hash":"163829667659521631","title":"Rac-Mediated Actin Dynamics and Cell Polarity","description":"This cluster centers on Rac signaling, lamellipodium assembly, actin nucleation and filament networks, and processes governing cell shape and polarity, with endocytosis and membrane trafficking aligning with actin remodeling. The consistent theme is Rac-driven actin cytoskeleton remodeling that enables cell movement and membrane trafficking, with auxiliary links to organelle dynamics and protein turnover.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":3},{"id":"GO:0010592","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0071963","count":3}]},{"hash":"2260728934681244509","title":"Oxidative and metal ion stress response","description":"The GO terms show cellular responses to hydrogen peroxide and to metal ions such as cadmium and lead, suggesting a shared function in responding to oxidative and heavy-metal stress. While some terms are unrelated (developmental processes, photosynthesis, obsolete terms), the recurring theme among the main terms points to stress signaling and detoxification under oxidative and metal ion stress.","confidence":"Low","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0021756","count":4},{"id":"GO:2000531","count":4},{"id":"GO:1903071","count":4},{"id":"GO:0030850","count":4}]},{"hash":"262198730079399463","title":"Cell cycle regulation and epithelial differentiation","description":"The top terms cluster around cell division and regulation of the cell cycle, paired with differentiation of epithelial and glandular cell types (Leydig cell differentiation, mammary gland epithelial cell proliferation, multi-ciliated epithelial cell differentiation). T cell proliferation also appears, suggesting general proliferative signaling rather than a single pathway. Some terms (late viral transcription, vitamin E response, magnesium ion response) seem ancillary, so the core theme remains proliferative and differentiation processes.","confidence":"Medium","size":6,"edges":8,"triangles":4,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033327","count":3},{"id":"GO:0030857","count":3},{"id":"GO:0042098","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0071157","count":3}]},{"hash":"2269299015135766237","title":"Potassium Transport and Neuronal Excitability","description":"Dominant GO terms center on potassium ion transport, potassium import, and neuronal action potential, suggesting a functional cluster tied to neuronal excitability via potassium handling. Calcium release and corticosterone/glucocorticoid signaling terms appear as supporting regulatory context, but the main pattern links potassium transport to neuronal activity.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":6},{"id":"GO:0071386","count":5},{"id":"GO:0014808","count":5},{"id":"GO:0048016","count":5},{"id":"GO:0097271","count":5}]},{"hash":"1156872623595302682","title":"Negative regulation of kinase signaling and cell cycle","description":"GO terms in this cluster converge on inhibiting kinase activity and regulating cell-cycle processes, including dephosphorylation of threonine residues, negative regulation of MAPK/JNK signaling, and roles in cell growth and meiotic spindle dynamics. The combination suggests a coherent theme of signaling suppression coupled with cell-cycle control, with a minor note of immune signaling regulation in host interactions.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0043508","count":2},{"id":"GO:0051895","count":2},{"id":"GO:0051229","count":2},{"id":"GO:0061388","count":2}]},{"hash":"2079450512751484200","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000056","count":1},{"id":"GO:1905053","count":1},{"id":"GO:0006353","count":1}]},{"hash":"1881605717047012002","title":"Antiviral Immune Signaling","description":"The GO terms are dominated by immune defense and signaling, including defenses against viruses and protozoa, interferon response, IL-18 production, and regulation of T cell receptor signaling, highlighting a coherent theme of immune regulation and antiviral responses; a few terms about ER fusion and synaptic assembly are less central but may reflect broader membrane and neural-immune connections.","confidence":"Medium","size":6,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0008582","count":2},{"id":"GO:0071346","count":2},{"id":"GO:0071158","count":2}]},{"hash":"1858941264122838775","title":"Immune Activation and Axon Guidance","description":"The proteins cluster around immune functions (complement activation, B cell signaling, phagocytosis, innate immunity) indicating a core immune-activation module, while semaphorin-plexin signaling and neuron projection guidance terms suggest a secondary neuronal guidance component, implying these proteins may link immune signaling with neural development cues.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0006911","count":3},{"id":"GO:0050871","count":3},{"id":"GO:0045087","count":3}]},{"hash":"743572948406859378","title":"Unknown","description":"The GO terms are a mix of immune-related processes (B cell chemotaxis, NK cell cytotoxic susceptibility, gamma-delta T cell activation, tumor cell detection, Ig transcytosis) and neural development cues (axon guidance, paranodal junction assembly), with no clear single functional theme or interconnections among the proteins in this cluster; there are also no edges connecting members, making a cohesive label unlikely.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050927","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0046813","count":2},{"id":"GO:0035754","count":2},{"id":"GO:0021966","count":2}]},{"hash":"2203206326072241465","title":"Neuronal adhesion and synapse assembly","description":"This cluster is dominated by GO terms related to nervous system development, neuron cell\u2013cell adhesion, and synapse assembly (and their positive regulation), indicating the proteins collectively participate in neural connectivity and synaptic organization. While a few terms refer to non-neural processes (e.g., keratinization, hair orientation), the central theme across the terms is neuronal adhesion and synapse formation\u2014consistent with a neural development cluster.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032773","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0016339","count":5},{"id":"GO:0051965","count":5},{"id":"GO:1903142","count":5}]},{"hash":"1419124476898469119","title":"Unknown","description":"The GO terms span immune signaling (interferon responses, biotic stimulus), host-symbiont interaction, metabolism (glucose import in response to insulin), bone development (mineralization and morphogenesis), neuromuscular/posture control, and neuronal trafficking (synaptic vesicle clustering, endosome to plasma membrane transport). This breadth suggests there is no single cohesive function linking the cluster, making a unified, specific label inappropriate.","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0030282","count":2},{"id":"GO:0060349","count":2}]},{"hash":"34589554709157658","title":"Transcription Regulation and Chromatin Modification","description":"This cluster centers on DNA-templated transcription and regulation of transcription from RNA Polymerase II, with associated histone modification/demethylation terms (even if labeled obsolete). The combination suggests proteins involved in controlling gene expression through transcriptional regulation and chromatin state, which can also relate to differentiation processes like myoblast differentiation and vasculogenesis seen in the terms.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0045663","count":2},{"id":"GO:0036138","count":2},{"id":"GO:0042265","count":2},{"id":"GO:0034720","count":2}]},{"hash":"1371574451176099004","title":"Unknown","description":"The top GO terms span ribosome maturation, meiotic regulation, ER-stress\u2013induced apoptosis, SREBP signaling, pigmentation, G1 DNA damage checkpoint signaling, microtubule severing, multicellular development, skeletal morphogenesis, and protein autophosphorylation. These represent quite disparate cellular processes (ribosome biogenesis, cell division control, stress responses, metabolism signaling, pigment formation, cytoskeletal dynamics, and development). There is no single cohesive function tying all proteins together, so no specific functional label is supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000462","count":4},{"id":"GO:0040020","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0032933","count":3},{"id":"GO:0043473","count":3}]},{"hash":"882103672341759554","title":"Cell Cycle Progression and Checkpoints","description":"The dominant GO terms center on cell division, mitotic cell cycle, and regulation of meiotic nuclear division, with a strong signal for G1 DNA damage checkpoint signaling. This points to a cluster whose proteins are primarily involved in cell-cycle progression and checkpoint control. Additional terms related to TORC1 signaling, ubiquitin-dependent protein catabolic process, and cytoskeletal dynamics echo growth and protein turnover that accompany cell-cycle regulation, while a few terms (ER-stress\u2013induced apoptosis, pigmentation, SREBP signaling) may reflect broader or secondary roles annotated to these proteins. Overall, the core theme is cell-cycle control and checkpoint responses.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:1904263","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0040020","count":3},{"id":"GO:0070059","count":3}]},{"hash":"1686286985320881992","title":"Unknown","description":"The GO terms are highly diverse and span metabolism, signaling, development, immune response, and coagulation with no single shared function linking the six proteins. There are no edges or coherent themes to tie the terms together, so a specific label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":1},{"id":"GO:0090238","count":1},{"id":"GO:0043517","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0001957","count":1}]},{"hash":"393390105503049041","title":"Developmental transcriptional regulation","description":"This cluster is dominated by GO terms related to transcription by RNA polymerase II and its negative regulation, along with developmental processes such as multicellular growth, post-embryonic development, cochlea morphogenesis, and midbrain development, suggesting proteins that regulate gene expression during development. Some isolated terms (repair, spermatogonial division) are less connected, but the main signal points to developmental transcription control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0035264","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0009791","count":2},{"id":"GO:0090103","count":2}]},{"hash":"2091053395028693717","title":"Lipid homeostasis and lipoprotein transport","description":"The top GO terms converge on lipid metabolism and transport, including energy homeostasis, triglyceride biosynthesis regulation, phosphatidylcholine catabolism, lipoprotein transport, and LDL particle clearance; together these suggest a coordinated role in lipid balance and lipoprotein processing, with an insect-specific pupariation term likely reflecting developmental metabolic shifts. Overall, these proteins likely participate in lipid handling and energetic regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000505","count":1},{"id":"GO:0010899","count":1},{"id":"GO:0035073","count":1},{"id":"GO:0010867","count":1},{"id":"GO:2000121","count":1}]},{"hash":"606963111858920059","title":"Unknown","description":"The top GO terms in this cluster are very diverse, including invasive growth under glucose limitation, ubiquitin-dependent proteolysis, ER stress\u2013related apoptosis, actin filament capping, meiotic nuclear division regulation, spindle assembly, pigmentation, and SREBP signaling. There isn\u2019t a single unifying biological theme that ties these processes together, suggesting the proteins do not share a coherent function or pathway. Therefore, I assign Unknown with no confidence.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0001403","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0040020","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0070059","count":4}]},{"hash":"1956797705467497331","title":"Ubiquitin-Dependent NF-kB Signaling Regulation","description":"Based on the top GO terms, the cluster centers on ubiquitin-related processes (ubiquitin-dependent protein catabolic activity, various ubiquitination events, autoubiquitination) and regulation of NF-kB signaling, with some related chromatin and immune-system processes (histone catabolism, V(D)J recombination). This suggests a cohesive theme of ubiquitin-mediated control of signaling and transcription, especially NF-kB, even though the interactions among proteins are not connected in this dataset. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0007250","count":3},{"id":"GO:0033151","count":3},{"id":"GO:0085020","count":3}]},{"hash":"2112544782205497495","title":"ABA signaling and chloroplast transport","description":"The dominant terms point to ABA biosynthesis and ABA-activated signaling, along with chloroplast stroma protein import and stomatal movement, indicating a group of plant proteins involved in ABA-mediated chloroplast function and stress responses.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006727","count":2},{"id":"GO:0009688","count":2},{"id":"GO:0045037","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0010118","count":2}]},{"hash":"419832755979982792","title":"Mitochondrial import and mitophagy in neurons","description":"The cluster is dominated by mitochondrial-focused GO terms (protein import into mitochondrial matrix, calcium import into the mitochondrion, regulation of mitophagy, and ROS regulation) and neuron-related terms (neuron-neuron synaptic transmission, fear response), suggesting a mitochondria-centered role in neural signaling and energy management. Some outliers (fin regeneration, epithelial differentiation, cilium assembly) are less clearly linked but do not override the core mitochondrial-neuronal theme.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030855","count":3},{"id":"GO:0007270","count":3},{"id":"GO:1902017","count":3},{"id":"GO:2000378","count":3},{"id":"GO:0006820","count":3}]},{"hash":"126622515231466158","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006740","count":2},{"id":"GO:0006189","count":2},{"id":"GO:0042853","count":2},{"id":"GO:2000836","count":2},{"id":"GO:0021642","count":2}]},{"hash":"893070211500837619","title":"Actin-based membrane remodeling and endocytosis","description":"The top GO terms cluster around actin cytoskeleton dynamics and membrane protrusions (filopodia, ruffles, podosomes) and endocytosis, with regulation by small GTPases. This suggests a functional module of actin-driven remodeling at the cell surface, coordinating adhesion, protrusion formation, and endocytic processes.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0090135","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0006897","count":4}]},{"hash":"6977133763422652","title":"Unknown","description":"Top GO terms span lipid remodeling, immune signaling, development, and mitochondrial energy processes, with no single unifying function linking all six proteins. This diversity makes it hard to assign a concise, representative label.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0036151","count":5},{"id":"GO:0070970","count":5},{"id":"GO:0006663","count":5},{"id":"GO:0010143","count":5},{"id":"GO:0035965","count":5}]},{"hash":"1270668008905780147","title":"Sensory neural signaling and memory","description":"Genes are enriched for neural signaling and memory-related functions: synaptic transmission, glutamate receptor signaling, sensory perception (touch and olfactory learning), and long-term memory, with potassium transport supporting excitability. This supports labeling as Sensory neural signaling and memory.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048899","count":2},{"id":"GO:0065009","count":2},{"id":"GO:0050806","count":2},{"id":"GO:0008355","count":2},{"id":"GO:0050975","count":2}]},{"hash":"1904704629760527842","title":"ER vesicle fusion","description":"The top GO term points to vesicle fusion with the endoplasmic reticulum, suggesting possible involvement in ER-associated vesicle trafficking or ER-Golgi transport. However, only a single member carries this annotation (count 1), so the functional connection across all six proteins is weak and the cluster\u2019s coherence is uncertain. ","confidence":"Low","size":6,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048279","count":1}]},{"hash":"1882689758974542837","title":"Embryonic Morphogenesis and Organ Development","description":"The top GO terms point to diverse morphogenetic processes across multiple tissues during embryonic development, including nerve formation, craniofacial and limb patterning, sensory organ development, and glandular organ development. This broad but cohesive theme centers on embryonic tissue shaping and organogenesis, justifying a label focused on developmental morphogenesis across organs.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000836","count":5},{"id":"GO:0021642","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0021889","count":5},{"id":"GO:0021623","count":5}]},{"hash":"162836978427184272","title":"Immune signaling regulation and inflammation","description":"The top GO terms are dominated by immune-related processes: regulation of TLR4 signaling, negative regulation of apoptosis, adaptive immune response, defense against Gram-negative bacteria, and NF-kappaB-related activity with ubiquitination. This points to a cohesive theme of modulating immune activation and survival. A couple of terms (vitamin E biosynthesis, filopodium assembly) are less central but can relate to immune cell metabolism and cytoskeletal dynamics. Overall, the cluster appears to group proteins involved in immune signaling and its regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034144","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0016567","count":2}]},{"hash":"626893108233832219","title":"ER-Golgi vesicle trafficking","description":"The top GO terms cluster around vesicle-mediated transport between the ER and Golgi, plus retrograde endosome-to-Golgi transport and general protein transport, pointing to intracellular trafficking along the secretory pathway. A few metabolic and developmental terms appear only once and are likely incidental. ","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0034478","count":1},{"id":"GO:0030643","count":1}]},{"hash":"233326883409373853","title":"TLR\u2013NF-\u03baB Innate Immune Signaling","description":"The top GO terms cluster around Toll-like receptor signaling (TLR3/9), IL-1\u2013mediated signaling, and both canonical and non-canonical NF-\u03baB pathway regulation, with defense against Gram-negative bacteria and xenophagy, indicating a cohesive innate immune sensing and NF-\u03baB\u2013mediated transcription module. The minor reference to microtubule-based movement may relate to vesicle trafficking involved in signaling or autophagy. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007018","count":2},{"id":"GO:0034162","count":1},{"id":"GO:0034138","count":1},{"id":"GO:0050829","count":1},{"id":"GO:0085032","count":1}]},{"hash":"1412927997148156756","title":"Diverse transmembrane transporters","description":"GO terms point to transmembrane transport of a broad set of substrates (xenobiotics, phosphate, potassium, nitrite/nitrate, galactose, arabinose, vitamins, and neurotransmitter loading into synaptic vesicles). This suggests the proteins act as membrane transporters with diverse substrates rather than a single substrate class.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0098700","count":2}]},{"hash":"567248904292217444","title":"Neural development and neuronal differentiation","description":"The top GO terms point to nervous system development and neuron lineage specification, including GABAergic neuron differentiation, astrocyte differentiation, amacrine cell differentiation, and auditory receptor cell fate. Although there are a few terms tied to non-neural mesodermal differentiation, the dominant theme is neural development and neuronal differentiation, suggesting these proteins contribute to neural fate specification and nervous system maturation.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0097531","count":3},{"id":"GO:0021858","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0003218","count":3}]},{"hash":"449193533878899059","title":"Unknown","description":"The terms span lipid biosynthesis (cardiolipin, CDP-diacylglycerol), cyclic nucleotide signaling (cGMP/guanylyl cyclase/adenylate cyclase pathways), sensory perception of smell, and cardiac muscle proliferation, with no clear shared function or localization. The lack of edges and the broad, disjoint GO terms make it impossible to assign a cohesive, specific label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0032049","count":1},{"id":"GO:0016024","count":1},{"id":"GO:0097332","count":1},{"id":"GO:0071321","count":1}]},{"hash":"1346350575965366784","title":"Kinase Signaling and Cell Cycle Regulation","description":"Top terms cluster around negative regulation of kinase activity and phosphorylation (e.g., JNK/MAPK repression, peptidyl-threonine dephosphorylation, and general kinase activity regulation) together with cell cycle and growth control (cell cycle, regulation of rate of cell growth) and spindle dynamics. This suggests a common theme of phosphorylation-mediated control of signaling pathways that govern proliferation and division, even though a few terms are more peripheral.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043508","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0051895","count":4},{"id":"GO:0051229","count":4},{"id":"GO:0061388","count":4}]},{"hash":"975308660139361575","title":"RNA splicing and processing machinery","description":"The top GO terms cluster around spliceosome assembly, snRNP assembly, mRNA splicing via spliceosome, and rRNA/tRNA processing, plus transcription termination, indicating a core nuclear RNA processing program. Some ABA and water deprivation response terms are present but appear secondary to the dominant RNA maturation theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030490","count":4},{"id":"GO:0009737","count":4},{"id":"GO:0070317","count":4},{"id":"GO:0008033","count":4},{"id":"GO:0000245","count":4}]},{"hash":"922291145825094613","title":"Developmental EMT and ECM Remodeling","description":"Based on the GO terms, the cluster centers on developmental processes (somite and spinal cord development) with epithelial-to-mesenchymal transition, endothelial cell migration, tight junction and fibronectin ECM remodeling. Endocytosis and lipoprotein transport terms also align with endothelial/epithelial functions during development. This suggests a cohesive theme of developmental programs tied to cell adhesion and extracellular matrix dynamics, rather than a single metabolic pathway.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034381","count":2},{"id":"GO:0043542","count":2},{"id":"GO:0006898","count":2},{"id":"GO:0001837","count":2},{"id":"GO:1904274","count":2}]},{"hash":"909069508030529476","title":"RNA processing and splicing under abiotic stress","description":"This cluster is enriched for RNA maturation and processing functions, including rRNA maturation, tRNA processing, histone mRNA metabolism, transcription termination, and spliceosome assembly, with strong signals for RNA splicing (snRNP and spliceosome assembly). The ABA and water-deprivation terms suggest regulation of these RNA processing processes under abiotic stress, making RNA maturation/splicing the cohesive theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030490","count":4},{"id":"GO:0009737","count":4},{"id":"GO:0070317","count":4},{"id":"GO:0008033","count":4},{"id":"GO:0000245","count":4}]},{"hash":"1568117447471708984","title":"Transcription-Translation and Ribosome Biogenesis","description":"The frequent GO terms center on translation and ribosome assembly, with supporting terms for tRNA charging and rRNA modification, plus transcription-related processes (transcription, termination, antitermination). This pattern suggests a cluster of proteins involved in RNA synthesis, ribosome biogenesis, and the translation machinery, with stress responses to heat and antibiotics reinforcing this connection.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006353","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0006437","count":1}]},{"hash":"1250864068071866587","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":3},{"id":"GO:0042276","count":2},{"id":"GO:0006297","count":2},{"id":"GO:0071494","count":2},{"id":"GO:0070987","count":2}]},{"hash":"1840870783336635501","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":3},{"id":"GO:0044205","count":3},{"id":"GO:0007494","count":3},{"id":"GO:0071320","count":3},{"id":"GO:1903718","count":3}]},{"hash":"2112160940948499117","title":"Cardiac ion transport and contraction regulation","description":"The top GO terms center on ion transport (proton, sodium, potassium, calcium) and structural aspects of cardiomyocytes (T-tubule organization), together with terms about regulating heart contraction and cardiac muscle hypertrophy in response to stress. While some terms touch on broader muscle physiology and intracellular ion homeostasis, the prominent cues point to cardiac excitation-contraction coupling and ion homeostasis as the cluster\u2019s unifying theme. Therefore, the label captures the likely functional focus of these proteins.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":4},{"id":"GO:0002028","count":3},{"id":"GO:0098736","count":3},{"id":"GO:0033292","count":3},{"id":"GO:1903243","count":3}]},{"hash":"2089010172753534478","title":"Mitotic spindle assembly and cell division","description":"These proteins cluster around processes of mitotic spindle midzone assembly, microtubule organization and nucleation, and overall cell cycle progression, consistent with roles in spindle formation and cytokinesis. The presence of cell septum assembly and protein polymerization supports cytoskeletal dynamics and division. A few terms related to translation regulation and neuron differentiation appear as broader context, but the dominant theme is mitosis-related microtubule function and division.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090529","count":5},{"id":"GO:0051256","count":5},{"id":"GO:0007049","count":5},{"id":"GO:1905789","count":5},{"id":"GO:0051258","count":5}]},{"hash":"2235521214078423363","title":"Actin cytoskeleton remodeling and cell migration","description":"The cluster centers on cytoskeletal organization (sarcomere and stress fiber assembly), adhesion/spreading, and cell movement processes (phagocytosis, hemocyte migration, platelet aggregation), as well as proliferation linked to cytoskeletal dynamics, indicating a common theme of actin-driven remodeling and motility.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0045214","count":4},{"id":"GO:0070527","count":4},{"id":"GO:0006909","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0001938","count":3}]},{"hash":"1549808388930512743","title":"Unknown","description":"The GO terms span lipid catabolism, nucleotide and glycogen metabolism, cytoskeletal/mitotic regulation, intracellular transport, and nervous system-related processes, with only a loose hint toward trafficking. There is no single cohesive function uniting these terms, so the cluster does not map to a specific biological role beyond a heterogeneous mix. ","confidence":"","size":5,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006685","count":3},{"id":"GO:1903501","count":3},{"id":"GO:0046086","count":3},{"id":"GO:0005977","count":3},{"id":"GO:0015031","count":3}]},{"hash":"2151336184521538347","title":"Heart and urinary tract development","description":"The top GO terms cluster around organogenesis: endocardial cushion development and cardiac tissue regeneration point to heart development, while ureter maturation and ureteric bud signaling indicate urinary tract formation. Additional terms about Purkinje cell layer maturation suggest broader involvement in organ morphogenesis, with some immune signaling terms (IL-4/IL-13, interferon response) likely reflecting regulatory cross-talk during tissue development. Overall, the dominant theme is development and maturation of specific organs (heart and urinary tract).","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000683","count":5},{"id":"GO:0061026","count":5},{"id":"GO:0021691","count":5},{"id":"GO:2000703","count":5},{"id":"GO:0035799","count":5}]},{"hash":"173068966144223440","title":"Ubiquitin-Dependent Protein Degradation and Signaling","description":"This cluster is dominated by ubiquitination-related processes: autoubiquitination, ubiquitin-dependent protein catabolic processes, and K63-linked ubiquitination, plus aggresome assembly, all pointing to ubiquitin-driven protein turnover and quality control. The presence of GO terms for regulation of JNK cascade and TNF-mediated signaling suggests ubiquitination\u2019s role in modulating inflammatory signaling. A few development-related terms (placenta morphogenesis) may reflect broader ubiquitin regulation in development. Overall, the core theme is ubiquitin-dependent proteolysis and its influence on signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0060669","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0070534","count":4}]},{"hash":"1674532514445999138","title":"Vascular and neural development","description":"The top GO terms cluster around vascular processes (endothelial cell migration, blood vessel maturation) and neural/synaptic organization (neuroligin clustering at postsynaptic membranes), suggesting the proteins collectively participate in vascular and nervous system development. Some other terms appear minor or obsolete, indicating noise, but the vascular/neuronal theme is the most coherent. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043542","count":2},{"id":"GO:0090002","count":2},{"id":"GO:0032773","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0060488","count":1}]},{"hash":"464226340834239865","title":"Neural and Eye Morphogenesis","description":"The top GO terms strongly point to neural and ocular development, including commissural neuron axon guidance, optic nerve morphogenesis, and compound eye photoreceptor differentiation, along with corpus callosum development and retinoic acid responsiveness. While there are broader developmental and migratory terms, the neural/eye morphogenesis signals are most prominent, suggesting a cluster of proteins involved in neural and eye formation and patterning.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":3},{"id":"GO:0071679","count":2},{"id":"GO:0043535","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0021631","count":2}]},{"hash":"952636325866266836","title":"BMP/TGF-\u03b2 Signaling Regulation","description":"The GO terms show regulation of signaling pathways, notably negative regulation of BMP signaling and TGF-\u03b2 receptor signaling, plus SMAD-related activity and related NF-kappaB modulation, with phosphorylation/dephosphorylation and nuclear export aspects, pointing to a function focused on modulating signal transduction. Some terms appear unrelated noise (e.g., photosystem), but the core theme centers on signaling regulation.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042006","count":3},{"id":"GO:0030514","count":3},{"id":"GO:0010991","count":3},{"id":"GO:0080005","count":3},{"id":"GO:0035970","count":3}]},{"hash":"498310580937323295","title":"Spliceosome Regulation and Translation Initiation","description":"The cluster centers on RNA processing and translation control, with GO terms for both splicing regulation via the spliceosome (positive/negative) and translation initiation/ reinitiation (eIF4F complex assembly, translation initiation, translation reinitiation), along with related processes like small-subunit processome assembly and stress-related mRNA stability regulation. This suggests a cohesive theme linking mRNA processing to the control of translation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0048025","count":2},{"id":"GO:1900363","count":2}]},{"hash":"1686240288324976832","title":"Intracellular signaling and endomembrane regulation","description":"The top GO terms point to a mix of intracellular signaling (Ran signaling, Hippo signaling, positive regulation of GTPase activity) and endomembrane processes (regulation of endosome size, receptor recycling, presynapse assembly), suggesting these proteins collectively modulate signaling pathways and vesicle trafficking rather than a single specific function. Some terms like visual perception and pheromone response appear as broader signaling contexts, likely reflecting annotation breadth rather than a cohesive pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031291","count":5},{"id":"GO:0051036","count":5},{"id":"GO:0006547","count":5},{"id":"GO:0035330","count":5},{"id":"GO:0051301","count":5}]},{"hash":"781345162541335483","title":"Actin cytoskeleton remodeling and cell migration","description":"These terms converge on actin cytoskeleton remodeling (stress fiber assembly), cell adhesion/spreading, and cell polarity, with ERK/MAPK signaling and ubiquitination providing regulatory layers, suggesting a migratory and cytoskeletal function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050975","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0043149","count":3}]},{"hash":"1707665400302502617","title":"Neural-immune PI3K/IP3 signaling cluster","description":"The GO terms point to both neural (brain development, glial cell survival) and immune (phagocytosis regulation, B cell signaling/differentiation) processes, all tied together by phosphoinositide-mediated signaling (IP3 biosynthesis, phospholipid metabolism, and Ras/Rho pathway regulation). This suggests a coherent theme of PI3K/IP3 and related phospholipid signaling operating in neural and immune contexts, affecting cytoskeletal dynamics and cell signaling. ","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050764","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0032959","count":4},{"id":"GO:0009395","count":4}]},{"hash":"1897251558196641045","title":"Cell Migration and Neural Morphogenesis","description":"These GO terms cluster around cytoskeletal remodeling and cellular movement (cell spreading, stress fibers, migration, chemotaxis) and neural development/morphogenesis (dendrite formation, substantia nigra development, oligodendrocyte differentiation, synaptic plasticity), suggesting a common theme of migration and morphogenesis across neural and non-neural tissues.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":3},{"id":"GO:0043149","count":3},{"id":"GO:0035099","count":3},{"id":"GO:0038027","count":3},{"id":"GO:0048813","count":3}]},{"hash":"191686011076731574","title":"DNA replication and genome maintenance","description":"The top GO terms cluster around DNA replication, DNA damage response, and cell cycle control (DNA replication, SOS response, nucleotide-excision repair, centrosome cycle, and transcriptional regulation tied to replication), suggesting a genome maintenance theme for the cluster. Some terms relate to development, which may reflect pleiotropic roles of these genes, but the core signal points to replication and repair processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0010571","count":2}]},{"hash":"1594621766833975696","title":"Gene Expression Regulation and Development","description":"The cluster\u2019s GO terms span ubiquitin-dependent protein catabolic processes, regulation of translation initiation, formation of cytoplasmic translation initiation complexes, chromatin/heterochromatin formation regulation, and developmental processes (in utero embryonic development, skeletal muscle differentiation, cell population proliferation, meiosis I). This suggests a cohesive theme around controlling gene expression at multiple levels (protein turnover, translation, chromatin) in the context of development and differentiation, with some additional regulatory roles in signaling (GTPase activity) and viral translation mechanisms. Confidence reflects the broad, but plausible, linking of these functions into a regulatory network governing development.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0090054","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0034260","count":2}]},{"hash":"247020750449969727","title":"Ubiquitin-Dependent MAPK and Wnt Regulation","description":"The top GO terms cluster around ubiquitination processes (ubiquitin-dependent protein catabolic process, autoubiquitination, monoubiquitination, K63-linked ubiquitination) and the regulation of signaling pathways, including JNK/ERK (MAPK) cascades and canonical Wnt signaling, with links to apoptosis regulation. This suggests a theme of ubiquitin-mediated control of signaling networks and cell fate.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0070534","count":2}]},{"hash":"1660278634802675050","title":"Unknown","description":"The top terms show a disparate mix of metabolic pathways (amino acid/ cysteine transsulfuration, gluconeogenesis, fatty acid biosynthesis), transport and stress responses, metal ion homeostasis, and even cell cycle regulation, with several terms obsolete. This lack of a cohesive functional theme suggests no single, representative function for the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019343","count":2},{"id":"GO:0045722","count":2},{"id":"GO:0031460","count":2},{"id":"GO:0006535","count":2},{"id":"GO:0006633","count":2}]},{"hash":"1901369679838700719","title":"Inner ear development and ion transport","description":"The top GO terms emphasize inner ear development and ion transport across membranes (sodium and potassium), along with cyclic nucleotide signaling (cAMP/cGMP) and related cellular responses, suggesting a functional theme around sensory organ development with ion handling and signaling. A few terms like aerotaxis and pain perception may be incidental noise, but they do not override the core pattern linking ear development to ion transport and signaling. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0009454","count":4},{"id":"GO:0098719","count":4},{"id":"GO:0071320","count":4},{"id":"GO:0019233","count":4}]},{"hash":"273231750387406958","title":"Actin-driven cytoskeletal remodeling and signaling","description":"This cluster centers on actin cytoskeleton dynamics (ruffle assembly) and associated signaling pathways (JNK, Wnt, GTPase activity), with links to cell cycle and apoptosis and responses to mechanical stimuli, suggesting a cohesive theme of cytoskeletal remodeling coordinating signaling and cell fate decisions.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0097178","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0043547","count":2}]},{"hash":"615381498821509821","title":"Macrophage differentiation and immune signaling","description":"This cluster centers on immune-related processes: macrophage differentiation, regulation of NF-kappaB signaling, JNK cascade regulation, Th1-type immune response, and interferon production, indicating a cohesive theme of immune modulation. While a couple of terms touch on neuronal development, the strongest signals are inflammatory and immune pathways, suggesting a macrophage/immune function focus. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0000186","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0030225","count":2},{"id":"GO:0032707","count":2}]},{"hash":"873095336080143043","title":"SCF-ubiquitin-driven mitosis control","description":"These proteins cluster around mitotic regulation and ubiquitin-proteasome\u2013mediated protein turnover: SCF-dependent ubiquitination, protein autoubiquitination, and key mitotic transitions (G2/M, exit from mitosis, chromosome segregation). While some terms like viral process and ER stress-related pathways are broader stress responses, the strongest signal is ubiquitin-mediated control of mitosis. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0007059","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0016032","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0000086","count":4}]},{"hash":"391032300810051185","title":"Calcium-Dependent Neuronal Exocytosis","description":"This cluster centers on presynaptic calcium regulation and exocytosis, as shown by terms like regulation of presynaptic cytosolic calcium concentration and positive regulation of exocytosis, with added hints from corticosterone response and calcineurin-NFAT signaling, suggesting a neuronal signaling module linked to calcium-triggered neurotransmitter release.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051412","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0016061","count":5},{"id":"GO:0010801","count":5},{"id":"GO:0051533","count":5}]},{"hash":"719026400064611969","title":"MAPK/JNK signaling regulation and cell cycle control","description":"The Top Terms show strong emphasis on negative regulation of kinase activity, including JUN kinase/MAPK pathway components and protein phosphorylation regulation, alongside cell cycle-related processes (cell cycle, spindle disassembly, growth-rate regulation). A few translation-related terms are present but less representative. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0043508","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0051895","count":1},{"id":"GO:0051229","count":1}]},{"hash":"1569693465533666784","title":"DNA Damage Response and Metal/Oxidative Stress","description":"The proteins cluster around diverse stress-response processes: UV-induced DNA damage repair (transcription-coupled nucleotide-excision repair), oxidative stress response, and responses to various metal and chemical stressors (lead, mercury, zinc, iron, aluminum, herbicide). This pattern suggests a shared role in DNA damage control and general cellular stress management under environmental challenges.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009411","count":1},{"id":"GO:0006283","count":1},{"id":"GO:1901799","count":1},{"id":"GO:0071284","count":1},{"id":"GO:0046689","count":1}]},{"hash":"1558259012492784220","title":"Developmental Regulation and Translation Control","description":"The dominant themes are regulation of development (embryonic development, muscle differentiation, meiosis) along with regulation of protein synthesis and turnover (translation initiation regulation, ubiquitin-dependent degradation). This suggests a broad regulatory cluster rather than a single pathway, best captured by a label spanning development and translation control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0090054","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0034260","count":2}]},{"hash":"457606726037503564","title":"Innate immune signaling and dendritic cell differentiation","description":"The top GO terms point strongly to immune-related processes: lipopolysaccharide-mediated signaling, NF-kappaB activity, PI3K/Akt signaling, and myeloid dendritic cell differentiation, along with lymph node development. These collectively suggest proteins involved in initiating innate immune responses and guiding dendritic cell development/activation, with some broader regulatory connections (miRNA transcription, cell adhesion) that support immune cell interactions. Overall, the cluster appears to reflect an immune signaling/dendritic cell differentiation theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902895","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0043491","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0043011","count":3}]},{"hash":"59900812064309455","title":"Neural Sensory Signaling and Heart Development","description":"This cluster highlights sensory-related processes (visual perception, visual learning, pain perception) alongside neural signaling pathways (ERK cascade, protein phosphorylation, prostaglandin response, brain renin-angiotensin system), and includes a cardiovascular development term (heart development), suggesting a theme of neural/sensory signaling intersecting with cardiac development.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0002035","count":3},{"id":"GO:0070374","count":3}]},{"hash":"880715045348114896","title":"Anthocyanin and lignin biosynthesis","description":"The top GO terms cluster around anthocyanin-containing compound biosynthesis, cyanidin 3-O-glucoside biosynthesis, and lignin metabolic process, with supporting carbohydrate metabolism\u2014together, these point to the phenylpropanoid pathway and related pigment/structural metabolite production in plants. A few terms like cell cycle and paranode localization are less cohesive with this theme and may reflect annotation noise, but the dominant signal supports a phenylpropanoid biosynthesis focus.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0009718","count":3},{"id":"GO:0009808","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2277883930114061581","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning metabolism (regulation of gluconeogenesis, glucokinase activity), cell cycle control, heart development (atrial septum and endocardial cushion morphogenesis), stress responses (formalaldehyde), vitamin B1 response, and circadian clock temperature compensation. With only one edge and no clear shared functional theme among the five proteins, there isn\u2019t a coherent, singular function to name the cluster after.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":3},{"id":"GO:0003283","count":3},{"id":"GO:0071157","count":2},{"id":"GO:1904404","count":2},{"id":"GO:0045023","count":2}]},{"hash":"467055942803549342","title":"Ubiquitin-Mediated Regulation and NF-kappaB/JNK Signaling","description":"The terms cluster around ubiquitination processes (autoubiquitination, different ubiquitin linkages like K6 and K63, ubiquitin-dependent degradation) and connect to signaling pathways such as JNK cascade and NF-kappaB activation (NIK). This suggests a cohesive function in ubiquitin-dependent regulation and signaling rather than a single substrate, justifying the chosen label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0042787","count":3},{"id":"GO:2000620","count":3},{"id":"GO:0070512","count":3},{"id":"GO:0085020","count":3}]},{"hash":"147274239408542756","title":"Unknown","description":"The GO terms are highly diverse and span plant hormone biosynthesis, neural structure, chromatin silencing, mating-type regulation, vesicle transport, and more, with no clear, shared function binding the cluster. This makes it impossible to assign a specific, representative label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":2},{"id":"GO:0009688","count":1},{"id":"GO:0032487","count":1},{"id":"GO:0072383","count":1},{"id":"GO:1990705","count":1}]},{"hash":"1398340967161015674","title":"Ubiquitin-Mediated Innate Immune Defense","description":"The cluster\u2019s top GO terms cluster around ubiquitination (autoubiquitination, K63-linked ubiquitination, actin ubiquitination) and innate immune responses, including defense against virus, with additional notes on host\u2013symbiont interactions and proteolysis. This suggests proteins that use ubiquitin signaling to regulate innate immunity and host defense, including responses to viral infection and control of symbiont entry. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0046718","count":2},{"id":"GO:0006508","count":2}]},{"hash":"2093554789321023908","title":"RNA processing and translation regulation","description":"The proteins show GO terms spanning mRNA splicing regulation (via spliceosome), small-subunit processome and polyadenylation regulation, and multiple facets of translation initiation and reinitiation, including stress-related mRNA stability. This points to a cohesive theme around RNA maturation and subsequent control of translation, rather than a single processing step.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":1},{"id":"GO:0097010","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0048025","count":1},{"id":"GO:1900363","count":1}]},{"hash":"1704513686595458623","title":"Ubiquitin-dependent regulation of muscle development","description":"The top GO terms emphasize skeletal muscle fiber development alongside multiple ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein sumoylation, K33-linked ubiquitination, and regulation of ubiquitination). This points to a cohesive theme where ubiquitin/SUMO pathways regulate muscle differentiation and broader protein homeostasis, with additional terms reflecting regulatory roles in immune signaling and circadian processes that may share common regulators.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0042787","count":3},{"id":"GO:2001015","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1990390","count":2}]},{"hash":"1190204097808461221","title":"Developmental morphogenesis with immune signaling","description":"The top GO terms cluster around tissue morphogenesis across organs (metanephric distal tubule morphogenesis, cartilage condensation, lymph vessel morphogenesis) suggesting a developmental role. At the same time, there are immune-related terms (basophil activation, complement activation via lectin pathway, NK cell chemotaxis regulation, response to fungal origin), indicating immune modulation accompanies these developmental processes. Together, this points to a cohesive theme of development intertwined with immune signaling rather than a single isolated function.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0051873","count":3}]},{"hash":"817947786030740259","title":"Organelle Protein Import (Mitochondria & Chloroplast)","description":"The top GO terms show protein import into the mitochondrial matrix, insertion into the mitochondrial inner membrane, and import into the chloroplast stroma, indicating a shared role in targeting and importing proteins into organelles. While a few apoptosis-related terms appear, they are low-frequency and secondary to the import theme, supporting a cohesive cluster around organelle protein import pathways.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":3},{"id":"GO:0045039","count":2},{"id":"GO:0045037","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0000002","count":2}]},{"hash":"122182136581082195","title":"Sterol and sphingolipid biosynthesis","description":"The top GO terms converge on lipid metabolism: ergosterol biosynthesis, mannosyl-inositol phosphorylceramide metabolic process, sphinganine metabolic process, and unsaturated fatty acid biosynthetic process. Additional terms about sebaceous/tarsal gland development and myelin maintenance point to lipid-rich secretions and membrane lipids, supporting a lipid biosynthesis/theme. Some terms (nitric oxide, nitrate assimilation, mitochondrion inheritance) are less central but do not override the dominant lipid-related signals. Overall, the cluster is best described as sterol and sphingolipid biosynthesis.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":5},{"id":"GO:0006675","count":5},{"id":"GO:0032443","count":5},{"id":"GO:0032286","count":5},{"id":"GO:0006809","count":5}]},{"hash":"1510451442193037848","title":"Axon guidance and neural ganglion development","description":"This cluster is dominated by GO terms for axon guidance and neural development\u2014semaphorin-plexin signaling, commissural axon guidance, axonal fasciculation, and trigeminal/facioacoustic ganglion development\u2014along with signals for sprouting angiogenesis and endothelial chemotaxis, suggesting a module where neural pathfinding and early sensory ganglion formation are coordinated. A single term about molting cuticle appears as noise rather than a core theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002042","count":2},{"id":"GO:1902287","count":1},{"id":"GO:0071679","count":1},{"id":"GO:0061551","count":1},{"id":"GO:1903375","count":1}]},{"hash":"1426182706740533894","title":"Nociceptive GPCR Signaling","description":"The GO terms are dominated by G protein-coupled receptor signaling (including GPCR, adenosine receptor, and opsin pathways) and sensory-related processes such as pain perception and response to temperature, suggesting the proteins function together in nociceptive/thermosensory GPCR signaling, with some related thermogenesis associations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0035645","count":2},{"id":"GO:1903141","count":2}]},{"hash":"496210657270506042","title":"Angiogenesis and endothelial remodeling signaling","description":"This cluster centers on vascular development and remodeling, with GO terms for angiogenesis, sprouting angiogenesis regulation, endothelial cell proliferation control, wound healing, and Notch/MAPK signaling, plus cytoskeletal (Rho) and Golgi dynamics that support endothelial migration and vessel formation. The terms cohere around endothelial angiogenesis and tissue repair processes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045747","count":1},{"id":"GO:0050821","count":1},{"id":"GO:0032874","count":1},{"id":"GO:0001525","count":1},{"id":"GO:1903588","count":1}]},{"hash":"734453425501907938","title":"Retina development and transcription regulation","description":"This cluster\u2019s top terms cluster around RNA polymerase II\u2013driven transcription and its regulation (transcription initiation, DNA-templated transcription, regulation of transcription, snRNA transcription) alongside retina development (neural retina development, embryonic retina morphogenesis). This pattern suggests proteins involved in controlling gene expression during retinal development. Some insulin- and drug-related response terms appear, but the dominant signal is transcriptional control in a retinal context.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032868","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060059","count":2},{"id":"GO:0014823","count":1},{"id":"GO:0003407","count":1}]},{"hash":"1072245240286543735","title":"NF-kappaB signaling and ubiquitin-mediated immune regulation","description":"The terms indicate a theme around NF-kappaB activation and ubiquitin-dependent protein turnover with immune development processes (V(D)J recombination, lymph node and germinal center regulation), suggesting a cohesive cluster of NF-kappaB\u2013driven immune signaling controlled by ubiquitin pathways. Some terms like TORC1 regulation and Wnt receptor catabolism are broader, which lowers the overall cohesion.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":2},{"id":"GO:2000653","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0071157","count":2},{"id":"GO:1904262","count":2}]},{"hash":"2061489958683490343","title":"Nucleosome assembly and heterochromatin organization","description":"These proteins cluster around core chromatin processes: nucleosome assembly and positioning, heterochromatin organization, histone methylation marks (H3K4 and H3K27 trimethylation), and establishment of protein localization to chromatin, suggesting roles in chromatin packaging and nuclear organization, including effects on nucleus size.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":5},{"id":"GO:0016584","count":5},{"id":"GO:0080182","count":5},{"id":"GO:0070828","count":5},{"id":"GO:0097298","count":5}]},{"hash":"1550770853845580393","title":"Unknown","description":"The top terms cover a wide and disparate set of processes (nitric oxide biosynthesis, mammary gland proliferation, floral organ abscission, dendritic spine development, ultradian rhythm, myeloid apoptosis, epithelial polarity, lipoprotein assembly, Rac signaling, and Golgi transport) with plant and animal examples and no clear shared function. There is no single theme linking the terms to a specific biological role, so a meaningful label cannot be assigned beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":2},{"id":"GO:0033601","count":2},{"id":"GO:0010227","count":2},{"id":"GO:0060999","count":2},{"id":"GO:0007624","count":2}]},{"hash":"1495374939367400430","title":"Eye and Lens Morphogenesis","description":"The strongest signals are GO terms for camera-type eye morphogenesis and lens development, with retinoic acid response also tied to ocular development, indicating a coherent theme around eye formation. Some outlier terms (notochord development, cloacal septation, AMPA receptor clustering) may reflect broader developmental roles or annotation noise, so the label is moderately confident but not absolute.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048593","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0032526","count":2},{"id":"GO:0002088","count":2},{"id":"GO:1904106","count":1}]},{"hash":"1369542698357166558","title":"NF-kappaB Signaling and Ubiquitin-Mediated Immune Regulation","description":"This cluster's GO terms cluster around NF-kappaB pathway activation and regulation (NF-kappaB-inducing kinase activity, transcription factor regulation), negative control of IL-1\u03b2 production, antiviral defense, and ubiquitin-dependent proteolysis including actin ubiquitination and membrane repair, pointing to a coherent role in NF-kappaB\u2013driven innate immune signaling and ubiquitin-mediated protein turnover.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0007182","count":4},{"id":"GO:0007250","count":4},{"id":"GO:0050713","count":4},{"id":"GO:0007014","count":4}]},{"hash":"405369492939965002","title":"Cardiac Muscle Ca2+ Signaling and Membrane Repair","description":"The cluster is strongly enriched for cardiac muscle-related processes, including regulation of atrial muscle cell action potential, release of Ca2+ from the sarcoplasmic reticulum, and aspects of muscle development/differentiation. Supporting terms touch on cytoskeletal regulation and plasma membrane repair, which align with muscle cell contraction readiness and membrane integrity, with some stress-response signals appearing as secondary associations.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0007026","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0014808","count":3},{"id":"GO:1903608","count":3}]},{"hash":"2289449993700861173","title":"Cocaine-Responsive Neuronal Signaling and Spine Remodeling","description":"The top terms point to a neuronal/cocaine behavioral response and activation of signaling cascades (ERK/MAPK, PI3K/AKT) that drive synaptic changes, along with dendritic spine morphogenesis and actin dynamics, indicating synaptic remodeling associated with cocaine exposure. Some developmental and immune-related terms are present but appear secondary to the core neuronal plasticity theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048148","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0051897","count":3},{"id":"GO:0007275","count":3}]},{"hash":"196888125808793598","title":"Developmental signaling and tissue morphogenesis","description":"The proteins show GO terms centered on signaling (peptidyl-tyrosine phosphorylation) and broad tissue-development processes (limb, skin, bone, kidney tubule) plus angiogenesis regulation and cell adhesion, suggesting a common role in developmental signaling driving tissue formation.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":2},{"id":"GO:0010811","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0043931","count":2}]},{"hash":"1519797015220818207","title":"Metabolic\u2013Immune Signaling Regulators","description":"The GO terms center on metabolic regulation (energy homeostasis, insulin signaling, cholesterol storage) alongside immune signaling regulation (macrophage activation, TLR4 signaling), suggesting proteins that broadly modulate signaling in these intertwined pathways.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090341","count":3},{"id":"GO:2000505","count":3},{"id":"GO:0061469","count":3},{"id":"GO:0034144","count":3},{"id":"GO:0035053","count":3}]},{"hash":"2202482324837179438","title":"Embryonic Organogenesis and Patterning","description":"The top GO terms point to broad developmental roles across multiple organs (parathyroid gland, uterus, heart, cochlea, lens), including branching morphogenesis and anterior/posterior pattern specification, with involvement of signaling pathways such as Wnt and TGF-\u03b2 and processes like apoptosis. This indicates a cluster of proteins participating in embryonic organogenesis and tissue patterning rather than a single tissue-specific function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060017","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0001658","count":3},{"id":"GO:0009952","count":3},{"id":"GO:0030111","count":3}]},{"hash":"577534931880691836","title":"Ubiquitin-Proteasome Regulation of Oocyte Maturation","description":"The top GO terms are dominated by ubiquitin-dependent pathways (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, ubiquitin-dependent protein catabolic process, positive regulation of polyubiquitination) and meiosis/oocyte maturation (spindle assembly in female meiosis I, oocyte maturation). This suggests a cohesive module where ubiquitin-proteasome activity governs meiotic progression and oocyte development, with a few additional terms (circadian regulation, brain development) likely reflecting broader roles of ubiquitin pathways. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":3},{"id":"GO:1903378","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0030174","count":3},{"id":"GO:0007057","count":3}]},{"hash":"510557926840405436","title":"Actin dynamics and Rho/Rac signaling","description":"This cluster is driven by actin cytoskeleton remodeling and small GTPase signaling terms, notably actin filament branching and barbed-end capping, and regulation of Rac and Rho pathways, which together relate to cell spreading/adhesion. Additional terms like lipid tube assembly and development-related patterning support a broader cytoskeletal and signaling context but the core theme centers on actin dynamics and Rho/Rac signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:0070668","count":2},{"id":"GO:0060988","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0061847","count":2}]},{"hash":"461112194471675471","title":"Unknown","description":"The top GO terms cover meiotic spindle organization, metabolism, signaling, chromatin modification, apoptosis, and broad development, with no single unifying biological function, making a cohesive cluster label difficult to assign.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000212","count":2},{"id":"GO:0070640","count":2},{"id":"GO:0042523","count":2},{"id":"GO:2000775","count":2},{"id":"GO:0035376","count":2}]},{"hash":"1445184878409230142","title":"Unknown","description":"The four proteins show GO terms spanning lipid metabolism, GPCR signaling, granuloma formation, phagocytosis regulation, cytoskeleton transport, and calcium signaling. There is no single cohesive biological function linking these terms, suggesting a broad or ambiguous cluster rather than a specific shared role.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016042","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0002432","count":3},{"id":"GO:0050764","count":3},{"id":"GO:0019749","count":3}]},{"hash":"2160872260229030780","title":"Viral entry, genome integration, and latency","description":"The GO terms show a clear viral life-cycle pattern: entry into the host cell, DNA integration into the host genome, RNA-templated DNA synthesis, proviral latency, DNA replication, and DNA recombination. Additional terms related to viral manipulation of host defenses (e.g., negative regulation of siRNA processing) further support a viral-host interaction theme. A myotube differentiation term appears unrelated noise, but the core signals point to viral genome handling and latency as the cluster\u2019s shared function.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014902","count":2},{"id":"GO:0039651","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0015074","count":1}]},{"hash":"2153629917734145776","title":"Embryonic organogenesis and tissue organization","description":"These proteins are annotated with diverse developmental processes\u2014nervous system development, notochord and kidney development, and striated muscle myosin thick filament assembly\u2014plus hemidesmosome assembly for cell\u2013ECM adhesion. The common thread is embryonic organogenesis and the establishment of tissue architecture, rather than a single conserved pathway.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0071688","count":4},{"id":"GO:0060035","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0072178","count":4}]},{"hash":"1699580755818613755","title":"Neural and craniofacial development","description":"This cluster is dominated by GO terms for neural development and craniofacial morphogenesis (peripheral nervous system neuron development, olfactory bulb interneuron differentiation, trochlear and oculomotor nerve formation, primitive streak formation, embryonic cranial skeleton morphogenesis). These themes suggest proteins functioning in early embryonic development with a focus on neural patterning and craniofacial structure formation, despite a couple of broader or unrelated terms. Confidence: High","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090009","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0000122","count":4},{"id":"GO:2000836","count":2},{"id":"GO:0021642","count":2}]},{"hash":"1866269350891997257","title":"Ubiquitin-dependent proteolysis","description":"The cluster centers on ubiquitination-related processes: protein ubiquitination, ubiquitin-dependent protein catabolic process, K48-linked ubiquitination, and autoubiquitination, indicating a shared role in tagging proteins for degradation. Some peroxisomal import and signaling terms are present, but the dominant pattern points to ubiquitin-mediated protein turnover.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090073","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0042787","count":2}]},{"hash":"941923357314443849","title":"Proteasome-Dependent Antigen Processing","description":"This cluster centers on proteolytic generation of peptides and their processing for antigen presentation, evidenced by terms like proteasomal protein catabolic process, peptide catabolic process, and antigen processing and presentation of exogenous antigen, with supporting roles for endocytosis. A few terms (e.g., cell cycle or lysine biosynthesis) may be noise, but the dominant theme is proteasome-driven peptide production for immune presentation.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000045","count":1},{"id":"GO:0019884","count":1},{"id":"GO:0061136","count":1},{"id":"GO:0010950","count":1},{"id":"GO:0043171","count":1}]},{"hash":"454721009188625431","title":"Stress-Response and Cell Cycle Control","description":"This cluster centers on GO terms linked to cellular stress responses that influence the cell cycle and apoptosis, including mitotic checkpoint signaling, regulation of exit from mitosis, ER-stress\u2013induced apoptotic signaling, DNA repair regulation, and various protein modification pathways (ISG15 conjugation, K6-linked ubiquitination). The mix suggests proteins involved in coordinating stress responses with cell cycle control and related processes, rather than a single, tight functional module.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007093","count":1},{"id":"GO:0007096","count":1},{"id":"GO:0070059","count":1},{"id":"GO:0031058","count":1},{"id":"GO:0045739","count":1}]},{"hash":"2205780774151225603","title":"DNA Damage Repair and ER Stress\u2013Induced Apoptosis","description":"The top GO terms cluster around cellular stress responses: cellular response to ionizing radiation, DNA repair, response to toxic substances, and an intrinsic apoptotic signaling pathway in response to ER stress, pointing to a DNA damage/ER-stress response theme. Some development and defense terms appear as less central annotations, which may reflect pleiotropic functions or annotation breadth, but the core signal is DNA damage repair and stress-induced apoptosis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071479","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0007275","count":2}]},{"hash":"496381466209711910","title":"Unknown","description":"The terms span mitotic cell cycle and meiotic spindle organization but also cholesterol/sterol metabolism and other diverse processes, with no single, dominant shared function across the four proteins, so a coherent, specific label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0000212","count":1},{"id":"GO:0070640","count":1}]},{"hash":"2201623220964706409","title":"Unknown","description":"The GO terms for this cluster are highly diverse (meiotic spindle organization, vitamin D3 metabolism, STAT phosphorylation, histone H3-S10 phosphorylation, sterol import, glycogen catabolism regulation, apoptotic cell clearance, general developmental processes), with no single dominant biological theme. This lack of a cohesive function makes it unassignable to a specific, representative label beyond Unknown.","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000212","count":3},{"id":"GO:0070640","count":3},{"id":"GO:0042523","count":3},{"id":"GO:2000775","count":3},{"id":"GO:0035376","count":3}]},{"hash":"946123964421132071","title":"Presynaptic Ca2+ signaling and exocytosis","description":"The GO terms cluster around presynaptic cytosolic calcium regulation, the positive regulation of exocytosis, and calcium-dependent signaling pathways (such as calcineurin-NFAT). This suggests a common role in neurotransmitter release and calcium-triggered vesicle fusion in neurons. While a couple entries touch broader nervous system processes (e.g., myelination, corticosterone response) or are obsolete, the core theme is presynaptic calcium signaling linked to exocytosis. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051412","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016061","count":3},{"id":"GO:0010801","count":3},{"id":"GO:0051533","count":3}]},{"hash":"1254707204515843820","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006526","count":1},{"id":"GO:0055081","count":1},{"id":"GO:0019240","count":1}]},{"hash":"47793646449721545","title":"Calcium signaling and astrocyte differentiation","description":"The top GO terms center on regulation and release of sequestered calcium from the sarcoplasmic reticulum, i.e., calcium signaling. The presence of astrocyte differentiation and corticosterone response terms suggests a glial context with calcium-coupled signaling and glucocorticoid responsiveness. Taken together, these terms point to a calcium-signaling cluster involved in astrocyte-related processes.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010880","count":2},{"id":"GO:0051412","count":2},{"id":"GO:0014808","count":2},{"id":"GO:0048708","count":2},{"id":"GO:0007205","count":2}]},{"hash":"2034033786828365036","title":"Ribosome biogenesis and translation initiation regulation","description":"This cluster centers on components involved in ribosome assembly and the process of translation. The top GO terms strongly point to translation (GO:0006412) and ribosome assembly (GO:0042255), plus an ITS2 rRNA processing step, all of which are core to ribosome biogenesis and function. There is also a term for negative regulation of translation preinitiation complex formation, suggesting regulatory control of initiation. A minor signal for antibiotic response could reflect antibiotics targeting ribosomes, but the dominant theme remains ribosome biogenesis and protein synthesis.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042255","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0000448","count":2},{"id":"GO:1901194","count":1}]},{"hash":"4994952699392647","title":"Developmental differentiation and EMT regulation","description":"Based on the GO terms, the proteins in this cluster are linked to development and cell fate decisions: skin development, stem cell differentiation, and regulation of epithelial-to-mesenchymal transition, with one term pointing to neural precursor proliferation. While translation-related terms and DNA damage response appear among the terms, they are less central to the cluster's main theme. Therefore, a label emphasizing developmental differentiation and EMT-related morphogenesis best captures the shared function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0032232","count":1},{"id":"GO:0071479","count":1},{"id":"GO:0006414","count":1}]},{"hash":"1773813864313710361","title":"Developmental cytoskeletal signaling and proliferation","description":"The top GO terms cluster around regulation of GTPase activity and Arp2/3-mediated actin nucleation, indicating cytoskeletal remodeling, together with cell cycle/proliferation and various developmental processes (skin, visual perception, organism development) and mRNA transport, suggesting a role in coordinating cytoskeletal dynamics with growth and tissue development.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0031954","count":3}]},{"hash":"570547946936823663","title":"Cardiac Electrical Activity and Calcium Handling","description":"The top GO terms point to regulation of atrial/ventricular membrane depolarization and repolarization, AV node action potential, and heart-rate control by cardiac conduction, together with calcium release from the sarcoplasmic reticulum\u2014reflecting cardiac electrophysiology and excitation-contraction coupling. An outlier term on ossification is present but does not override the primary cardiac-focused theme.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060371","count":3},{"id":"GO:0060307","count":3},{"id":"GO:0086016","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0086091","count":3}]},{"hash":"2242962781551845355","title":"ER stress response and protein quality control","description":"The terms highlight unfolded protein response, chaperone-assisted refolding, translation upregulation in ER stress, and ubiquitin-dependent degradation via ERAD, pointing to a cluster focused on managing misfolded proteins in the ER.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0036494","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006986","count":2}]},{"hash":"2128030415481614035","title":"Ubiquitination-driven protein degradation","description":"The top terms are dominated by ubiquitination-related processes (monoubiquitination, K48- and K63-linked ubiquitination, autoubiquitination) and ubiquitin-dependent protein catabolic process, suggesting the cluster centers on ubiquitin signaling leading to protein turnover; secondary terms touch on glycoprotein catabolism and immune regulation but the core theme is ubiquitin-mediated degradation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:1903378","count":3},{"id":"GO:0006516","count":3},{"id":"GO:0043314","count":2},{"id":"GO:0002692","count":2}]},{"hash":"152309511083715637","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development and synaptic activity (excitatory postsynaptic potential, optic nerve morphogenesis, multicellular organism development). While there are some general cell-cycle and stress-response terms present, the dominant theme is neural development and synaptic signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0097011","count":2}]},{"hash":"859627504563802923","title":"Redox Homeostasis and Oxidative Stress Response","description":"The cluster is dominated by GO terms related to managing oxidative stress and maintaining cellular redox balance (cellular redox homeostasis, cellular response to hydrogen peroxide, cellular oxidant detoxification, redox-related processes). While other terms touch on extracellular matrix, erythrocyte maintenance, and reproduction, the strongest signal centers on oxidative stress response and redox regulation.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0042267","count":4},{"id":"GO:0018171","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0034101","count":3},{"id":"GO:0030416","count":3}]},{"hash":"1065701508585703900","title":"Innate Immune Signaling and Neutrophil Recruitment","description":"The top GO terms cluster around innate immunity: neutrophil chemotaxis, type I interferon signaling, regulation of TLR4 signaling, and Th1 differentiation, with additional immune-regulatory terms. A few metabolic or proliferative terms appear but do not define the core function. This makes \"innate immune signaling and neutrophil recruitment\" a concise, representative label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":3},{"id":"GO:0045931","count":2},{"id":"GO:0070668","count":2},{"id":"GO:0060337","count":2},{"id":"GO:0032271","count":2}]},{"hash":"486494512572194598","title":"Viral infection cycle","description":"This cluster is best described by GO terms related to viral processes\u2014uncoating of virus, viral release from host cell, and the viral life cycle\u2014suggesting a theme around virus-host interactions. A few terms (lipid droplet organization, leukocyte migration, sepal formation) seem less directly connected and may reflect annotation noise, but the core signal centers on viral infection steps.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010849","count":1},{"id":"GO:0019061","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0048453","count":1}]},{"hash":"1190227602904282309","title":"Ribosomal RNA maturation","description":"The cluster contains clear signals for rRNA processing/maturation (maturation of LSU-rRNA and 5.8S rRNA from tricistronic transcripts), pointing to ribosome biogenesis as the core theme. Other GO terms are diverse and less cohesive, but the strongest associations are with rRNA maturation. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0040020","count":1},{"id":"GO:0070059","count":1}]},{"hash":"2017690326492874860","title":"Unknown","description":"Top GO terms are scattered across membrane potential regulation, several development processes (neural tube, uterine/gland development), and various regulatory activities, with many obsolete terms. There is no clear, shared function uniting the proteins, so a precise, representative label cannot be determined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":2},{"id":"GO:0035948","count":1},{"id":"GO:1903709","count":1},{"id":"GO:0016573","count":1},{"id":"GO:0007141","count":1}]},{"hash":"731035954971154351","title":"Skeletal muscle regeneration and angiogenesis","description":"The top GO terms point strongly to muscle biology (myoblast proliferation; skeletal muscle tissue regeneration) and vascular processes (vasodilation; angiogenesis in wound healing), with PI3K/AKT signaling regulation also tying into growth and repair. While other terms appear (fat differentiation, inflammatory regulation), the central theme across the terms centers on muscle regeneration and associated angiogenesis, suggesting this cluster reflects muscle repair and vascular remodeling pathways.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010332","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0051450","count":2},{"id":"GO:0042311","count":2},{"id":"GO:0002862","count":2}]},{"hash":"609450563336862060","title":"Mitochondrial protein import and copper transport","description":"This cluster is best described by mitochondrial protein trafficking functions, including protein import into the mitochondrial matrix and mitochondrial outer membrane translocase assembly, along with tRNA import into mitochondrion. The presence of copper ion transport and homeostasis terms suggests a link to metal handling across membranes, potentially reflecting a subset of proteins involved in coordinating copper handling with mitochondrial import. However, the absence of observed interactions (Edges 0) makes the association less certain, so a Medium confidence is appropriate.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015680","count":1},{"id":"GO:0098705","count":1},{"id":"GO:0072719","count":1},{"id":"GO:0006878","count":1},{"id":"GO:1902311","count":1}]},{"hash":"2230044705446381034","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0019076","count":1}]},{"hash":"2108964841276446795","title":"p53-regulated DNA damage response and transcription","description":"The top GO terms point to transcription control in a DNA-templated context (elongation, termination, antitermination, regulation of elongation) combined with DNA damage response pathways and p53-mediated outcomes (cell cycle arrest, apoptosis) and gamma radiation response. This suggests a stress-responsive module where DNA damage triggers transcriptional programs via p53, with some coupling to translation and ribosome biogenesis as part of the cellular stress response. Confidence: High","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032784","count":1},{"id":"GO:0006353","count":1},{"id":"GO:1902164","count":1},{"id":"GO:0006354","count":1},{"id":"GO:0045727","count":1}]},{"hash":"1165704551890404701","title":"Calcium- and PI3K-ERK Signaling in Migration","description":"The top GO terms emphasize calcium-mediated signaling and positive regulation of PI3K and ERK cascades, combined with several cell migration and proliferation processes across diverse cell types (neurons, mast cells, endothelial cells, myoblasts, eosinophils). This points to a common theme of signaling networks that promote cell movement and growth, suggesting these proteins function in migration-related signaling pathways.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035584","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0001764","count":3},{"id":"GO:0014068","count":3}]},{"hash":"1443459384877059566","title":"Virus-related translation and virion assembly","description":"The top GO terms prominently point to translation, viral capsid/virion assembly, and viral release, with supporting roles in chaperone-mediated folding and mitochondrial import, suggesting a module tied to viral life cycle processes and host interactions. While some terms are general cellular processes, the viral assembly and release terms strongly indicate a virus-associated cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0019069","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1537316671637434509","title":"NF-\u03baB Activation and Ubiquitin Regulation","description":"This cluster is dominated by GO terms for positive regulation of canonical NF-kappaB signaling and TNF-mediated signaling, plus ubiquitin-related processes (polyubiquitination and ubiquitin-dependent protein catabolic processes), pointing to roles in inflammatory signaling and proteostasis; a few development-related terms are present but less representative. Confidence: Medium","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0097039","count":2},{"id":"GO:0007250","count":1},{"id":"GO:0048701","count":1}]},{"hash":"1127055521312676585","title":"Ribosome and Translation Machinery","description":"This cluster is dominated by translation-related terms: translation, ribosomal large subunit assembly, and mitochondrial translational termination, with a note on translational fidelity. The interleukin-4 response term appears as an outlier and does not define the core function. Therefore, the cluster is best labeled as ribosome and translation machinery, capturing cytosolic and mitochondrial protein synthesis components.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000027","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0006450","count":1},{"id":"GO:0070126","count":1}]},{"hash":"1874447646297641981","title":"Unknown","description":"Top GO terms are highly diverse, including cell cycle, pain and sensory responses, GPCR signaling, cardiac electrical regulation, cold and vitamin D responses, and apoptotic processes, with no clear single theme linking all proteins.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0048265","count":3},{"id":"GO:0010650","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0009409","count":3}]},{"hash":"2143355084688735282","title":"Inflammation and Morphogenesis","description":"The top GO terms point to immune/inflammatory activity (basophil activation; complement activation via the lectin pathway; response to fungal origin; regulation of NK cell chemotaxis; arachidonate secretion) and developmental/morphogenetic processes (cartilage condensation; metanephric distal tubule morphogenesis; lymph vessel morphogenesis; regulation of cell adhesion molecule production). This suggests a cluster enriched for inflammatory signaling with links to tissue remodeling and development, rather than a single specific pathway, hence a combined label that reflects both aspects.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0051873","count":3}]},{"hash":"795139726112208394","title":"Chromatin and centrosome organization","description":"This cluster\u2019s terms cluster around nuclear processes such as chromatin modification (histone methylation), snoRNP/snoRNP assembly in the nucleus, and centrosomal microtubule anchoring, with additional links to cell division and nuclear receptor assembly. Despite some obsolete terms, the core themes point to chromatin regulation and centrosome/nuclear organization during cell division, justifying a label centered on these functions.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:1903646","count":3},{"id":"GO:0021756","count":3},{"id":"GO:0070301","count":3},{"id":"GO:2000531","count":3},{"id":"GO:1903070","count":3}]},{"hash":"1905738212703005769","title":"Chromatin-mediated transcriptional repression","description":"The dominant GO signals point to repression of transcription via chromatin modifiers and histone marks (negative regulation of Pol II transcription, heterochromatin formation, histone methylation/demethylation) with some developmental/immune terms as secondary associations. This suggests the cluster comprises proteins involved in chromatin-based transcriptional repression.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0061188","count":2},{"id":"GO:0002458","count":2},{"id":"GO:1901726","count":2},{"id":"GO:2000584","count":2}]},{"hash":"1651993540240579414","title":"Unknown","description":"Top terms span diverse processes (platelet formation, heart development, sensory perception of sound, neurotrophin signaling, estradiol response, LPS response, B cell homeostasis); no single shared function or pathway ties all proteins together, so a coherent cluster name cannot be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030220","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007605","count":3}]},{"hash":"2184250181494894044","title":"Immune Cell Signaling and Actin Dynamics","description":"The GO terms cluster around regulation of phagocytosis and Rho-mediated cytoskeletal remodeling, IP3/calcium-linked signaling, and ERK/MAPK pathway regulation, with notes on neutrophil degranulation, extravasation, and Golgi localization. Together these point to coordinated signaling and actin dynamics governing immune cell behavior (phagocytosis, migration, and degranulation) rather than a single static function, supporting a label focused on immune cell signaling and cytoskeletal control.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050764","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0032959","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0002692","count":3}]},{"hash":"2278118335312437614","title":"Adaptive immune receptor signaling and IL-2 regulation","description":"The strongest signals are adaptive immune pathways: B cell receptor signaling, Fc-epsilon receptor signaling, and positive regulation of IL-2 production, indicating activation of adaptive immunity. Additional immune-related terms (NK and gamma-delta T cell activation, tumor cell detection, neutrophil homeostasis) support a broad immune activation cluster. A neuronal axon guidance term appears as a minor outlier but does not define the core theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0050853","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0021966","count":3}]},{"hash":"1132987387545337672","title":"Circadian Metabolic Signaling","description":"These proteins show GO terms centered on circadian regulation of gene expression, energy homeostasis, insulin receptor signaling, and responses to estrogen, all pointing to a theme where circadian clocks modulate metabolic and hormonal signaling. While there are a few unrelated terms (e.g., certain developmental and immune pathways), the dominant pattern is circadian control of metabolism and endocrine signaling, justifying the label. ","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043433","count":4},{"id":"GO:0032922","count":4},{"id":"GO:0090341","count":3},{"id":"GO:2000505","count":3},{"id":"GO:0061469","count":3}]},{"hash":"2093657212604122639","title":"Plant epidermal cell differentiation","description":"The top terms show a strong plant-specific signal, especially GO:0090627 (plant epidermal cell differentiation) alongside multicellular organism development, suggesting the cluster centers on epidermal differentiation in plants. Some immune-related terms appear but are likely noise or cross-species annotations; the epidermal development signal is the most representative. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0090627","count":3},{"id":"GO:0010467","count":3},{"id":"GO:2001183","count":3},{"id":"GO:0048304","count":3}]},{"hash":"1340092743452253763","title":"Unknown","description":"The four proteins are linked to a broad mix of GO terms including embryonic and cerebellar development, thyroid hormone generation, cell adhesion, sprouting angiogenesis, and complement pathways, with no single dominant function tying them together. This lack of a cohesive theme prevents a confident, specific label.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006924","count":3},{"id":"GO:0090050","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0051918","count":3}]},{"hash":"2093842362775829721","title":"Axonal Transport and Neurofilament Assembly","description":"Based on GO terms dominated by axonal transport (retrograde axonal transport, axonal transport of mitochondrion), neurofilament bundle assembly, and PNS axonogenesis, the cluster seems to group proteins involved in neuronal cytoskeleton and intracellular transport. Although skin barrier and autophagy-related terms appear, the strongest signal centers on nerve fiber transport and cytoskeletal organization.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904714","count":4},{"id":"GO:0061436","count":4},{"id":"GO:0048936","count":4},{"id":"GO:0035105","count":4},{"id":"GO:0031424","count":4}]},{"hash":"360360315459944807","title":"Lipid Metabolism and Energy Homeostasis","description":"The top GO terms cluster around lipid and energy regulation\u2014bile acid metabolism, cholesterol homeostasis, energy homeostasis, and insulin signaling\u2014suggesting a metabolic/energy-regulatory theme for this protein set. Some terms about immune signaling and development appear but are less central to the main pattern.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008206","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0042632","count":4},{"id":"GO:0090341","count":3}]},{"hash":"187819798198923562","title":"Cell Division and Development","description":"Top GO terms cluster around cell division, mitosis, and microtubule dynamics, with supporting signals of development and some broad pathways. The presence of terms like cell division, mitotic cell cycle, regulation of meiotic nuclear division, G1 DNA damage checkpoint signaling, and microtubule severing suggests a core focus on mitotic processes, while terms for multicellular development and skeletal morphogenesis indicate broader roles in organismal development. The mix implies a broad cell-division\u2013related cluster rather than a single, tightly connected pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0040020","count":1},{"id":"GO:0070059","count":1},{"id":"GO:0032933","count":1}]},{"hash":"331049763533958765","title":"Unknown","description":"The terms span diverse biological processes across ion transport, extracellular matrix remodeling, development, neuronal regeneration, cartilage morphogenesis, cell adhesion, extravasation, and even chlorophyll biosynthesis, with no single unifying function. The absence of internal edges (Edges: 0; Triangles: 0; Max Degree: 0) suggests the proteins do not share a cohesive role, so a specific functional label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006821","count":4},{"id":"GO:0006511","count":3},{"id":"GO:1901202","count":3},{"id":"GO:0030212","count":3},{"id":"GO:0031104","count":3}]},{"hash":"947945297851814125","title":"Ubiquitin-dependent B cell development","description":"The GO terms point to ubiquitin-dependent proteolysis/ERAD and NF-kappaB signaling, alongside immune-development processes such as V(D)J recombination, lymph node development, and regulation of germinal center formation. This suggests a theme of ubiquitin-mediated regulation during B cell development and immune signaling, despite the small cluster size and some obsolete terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0007182","count":2},{"id":"GO:0007250","count":2}]},{"hash":"1885806934989303407","title":"Ubiquitin-Proteasome-Mediated Degradation","description":"The top GO terms cluster around ubiquitination and proteasome-dependent protein catabolism (polyubiquitination, SCF-dependent proteasomal degradation, ubiquitin-dependent proteolysis), suggesting a core function in targeted protein turnover. Additional terms point to stress-related responses (cadmium exposure, ER stress\u2013induced apoptotic signaling, DNA damage checkpoint signaling), indicating proteolysis linked to cellular stress management. Despite only four proteins, the recurring theme is proteolysis via the ubiquitin-proteasome system under stress conditions.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0040020","count":3},{"id":"GO:0042787","count":3}]},{"hash":"201342009141354176","title":"Embryonic organogenesis (liver, pancreas, kidney)","description":"Proteins in this cluster are linked to development of several organs (liver, pancreas, kidney, placenta) and include processes like hepatoblast differentiation, endocrine pancreas development, nephron/tubule formation, and ureteric bud elongation. A common thread is embryonic organogenesis, with Wnt signaling regulation frequently involved in these developmental programs. This suggests the cluster reflects a multi-organ developmental theme rather than a single specific function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061017","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0035623","count":3},{"id":"GO:0030111","count":3},{"id":"GO:0061296","count":3}]},{"hash":"418041109941506994","title":"Embryonic Neural and Craniofacial Morphogenesis","description":"The top GO terms are dominated by developmental and morphogenetic processes affecting neural structures (nerve formation, interneuron differentiation), craniofacial elements (cranial skeleton and middle ear morphogenesis), and related organ morphogenesis (lung epithelia, limb patterning). This points to a shared function in shaping tissues during early development rather than a single tissue-specific activity. A few outliers exist (e.g., androgen secretion regulation, viral transcription suppression), but they don\u2019t overturn the overall developmental morphogenesis theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000836","count":4},{"id":"GO:0021642","count":4},{"id":"GO:0060441","count":4},{"id":"GO:0021889","count":4},{"id":"GO:0043922","count":4}]},{"hash":"113635504522915736","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034213","count":1},{"id":"GO:0019358","count":1},{"id":"GO:0034354","count":1},{"id":"GO:0046079","count":1},{"id":"GO:0070059","count":1}]},{"hash":"665730568117179932","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":1},{"id":"GO:0002127","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042256","count":1},{"id":"GO:0070475","count":1}]},{"hash":"1764679697630270902","title":"Innate Immune Activation and Cytoskeletal Remodeling","description":"The shared GO terms emphasize innate immune functions (innate immune response, mast cell proliferation, engulfment of apoptotic cells) alongside cytoskeletal dynamics (positive regulation of substrate adhesion-dependent cell spreading; barbed-end actin filament capping). This points to proteins coordinating immune signaling with actin remodeling for phagocytosis and cell migration. Some terms like bone development and lipid tube assembly may reflect broader tissue-context roles, but the core theme remains immune activation coupled with cytoskeletal changes.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0060348","count":3},{"id":"GO:1900026","count":2},{"id":"GO:0070668","count":2},{"id":"GO:1900740","count":2}]},{"hash":"1309797761923027783","title":"TLR-NF-kB Cytokine Signaling","description":"The top GO terms cluster around Toll-like receptor signaling, NF-kappaB activation, LPS detection, and cytokine production, which collectively describe innate immune signaling. A few developmental terms appear but are likely pleiotropic noise; the immune-related terms dominate, supporting a label for innate immune/toll-like signaling pathways.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090260","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0032474","count":3},{"id":"GO:0034130","count":3},{"id":"GO:0008063","count":3}]},{"hash":"603123034420661996","title":"Embryonic development and signaling","description":"Predominant GO terms indicate vertebrate embryonic patterning and growth signaling (paraxial mesoderm and notochord development, hippo signaling, retinoic acid response, and regulation of differentiation), suggesting a cohesive theme of developmental regulation. Some fungal terms appear as noise and do not alter the core interpretation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048339","count":2},{"id":"GO:0035023","count":2},{"id":"GO:2000736","count":1},{"id":"GO:0035329","count":1},{"id":"GO:0070807","count":1}]},{"hash":"1683982543851224293","title":"Unknown","description":"The GO terms associated with these proteins are highly diverse, including glycosylation and proteoglycan biosynthesis, infection structure formation, angiogenesis in wound healing, neural development, reproduction, learning, and inflammation. There is no single dominant function or pathway linking them, so a coherent, specific label cannot be assigned beyond Unknown.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":1},{"id":"GO:0005989","count":1},{"id":"GO:0075015","count":1},{"id":"GO:0060055","count":1},{"id":"GO:0021680","count":1}]},{"hash":"892309717614298476","title":"Nucleotide Metabolism & Salvage","description":"The proteins cluster around GO terms for nucleotide phosphorylation and biosynthesis (CDP, ADP, AMP salvage, purine ribonucleotide interconversion, ITP metabolism), indicating a shared role in nucleotide metabolism. Development terms appear, but the strongest signal is metabolic, suggesting annotation noise rather than a common developmental function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0044209","count":3}]},{"hash":"828813827022753137","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006296","count":2},{"id":"GO:0042769","count":2},{"id":"GO:0070301","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0006297","count":1}]},{"hash":"1825894118443383645","title":"One-carbon metabolism and folate pathways","description":"This cluster's GO terms cluster around serine/glycine and folate metabolism (tetrahydrofolate interconversion, folic acid metabolism), serine biosynthesis/catabolism, dTMP biosynthesis, and methylation, pointing to one-carbon metabolism feeding nucleotide synthesis and methylation. A few terms like interferon response and translation regulation may reflect incidental associations rather than core function, given the small cluster size.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034340","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0006564","count":1},{"id":"GO:0035999","count":1},{"id":"GO:0051289","count":1}]},{"hash":"1297782868622987924","title":"Multisystem Development and Morphogenesis","description":"The top GO terms point to development across several tissues (nervous system, notochord, kidney, muscle) and processes related to tissue organization (hemidesmosome assembly, endosomal trafficking), suggesting these proteins participate in broad developmental and morphogenetic roles rather than a single, specific pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0071688","count":3},{"id":"GO:0060035","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0072178","count":3}]},{"hash":"2103286920745997575","title":"Optic nerve and retinal neuron development","description":"This cluster centers on nervous system development with multiple terms tied to the visual pathway\u2014optic nerve morphogenesis, retinal ganglion cell axon guidance, fasciculation, and synapse assembly\u2014suggesting a cohesive role in optic nerve/retinal neural development.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0001954","count":2},{"id":"GO:0008285","count":2},{"id":"GO:2001275","count":2}]},{"hash":"315062393045671347","title":"Neural development and synaptic remodeling","description":"These proteins show strong signals for neuronal development, particularly hippocampus development, dendritic spine formation, and neuronal polarity/migration. Additional terms point to cytoskeletal dynamics, adhesion-related spreading, and trafficking to the plasma membrane, all of which underpin synaptic maturation and neural connectivity. Confidence that this label captures the cluster's theme is Medium.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:0043525","count":3},{"id":"GO:0042176","count":2},{"id":"GO:0030011","count":2},{"id":"GO:1900026","count":2}]},{"hash":"835121988516592324","title":"GABA/Glycine Receptor Clustering","description":"The strongest shared GO signals are glycine receptor clustering and gamma-aminobutyric acid receptor clustering, pointing to inhibitory synapse organization in the nervous system; other terms about molybdenum cofactor biosynthesis are less coherent with receptor clustering, so the core theme is inhibitory receptor clustering.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072579","count":2},{"id":"GO:0032324","count":2},{"id":"GO:0097112","count":2},{"id":"GO:0018315","count":2},{"id":"GO:0006777","count":2}]},{"hash":"357221374278629792","title":"Cell migration and polarity regulation","description":"The prominent GO terms point to coordinated control of cell movement, polarity, and cytoskeletal dynamics (ameboidal migration, maintenance of polarity, adhesion-dependent spreading, GTPase regulation), with connections to neuronal morphology (dendritic spine development) and membrane localization. This suggests a cluster of proteins involved in motility/polarity processes, potentially spanning general cell migration to neuron-specific morphology regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042176","count":3},{"id":"GO:0030011","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0001667","count":3},{"id":"GO:0050885","count":3}]},{"hash":"2286018891688370938","title":"Plant hormone biosynthesis and secondary metabolite production","description":"The GO terms center on biosynthesis of plant hormones (ethylene, gibberellin, auxin, salicylic acid) and secondary metabolites (proanthocyanidin), with additional metabolism-related terms like carbohydrate metabolism and glycosylation. This suggests a theme of plant growth regulation via hormone production and associated secondary metabolism, despite the small cluster size. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0046244","count":1},{"id":"GO:0009852","count":1},{"id":"GO:0010421","count":1}]},{"hash":"307877404499716716","title":"Spliceosome assembly and RNA processing","description":"This cluster is dominated by GO terms related to RNA splicing and processing, including mRNA splicing via spliceosome, spliceosomal complex/snRNP assembly, spliceosome assembly, tRNA processing, and maturation of rRNA. Additional terms point to broader RNA metabolism (histone mRNA, transcription termination). The predominant signal is RNA processing/splicing machinery, with some secondary stress-related terms, suggesting a cohesive RNA processing cluster.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0030490","count":2},{"id":"GO:0009737","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1231501421793015671","title":"Unknown","description":"The top terms span diverse areas (cell cycle and division, protein refolding, pore complex assembly, translocation into host cells, responses to cadmium and cocaine, isotype switching, and symbiotic interaction), with several obsolete terms. This lack of a coherent shared function among the terms suggests there is no single dominant biological theme for the cluster. Unknown is the most appropriate label, with no reliable function to assign.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0042026","count":3}]},{"hash":"1206733191772268061","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033129","count":3},{"id":"GO:0070935","count":3},{"id":"GO:0000212","count":2},{"id":"GO:0070640","count":2},{"id":"GO:0042523","count":2}]},{"hash":"190853059725289537","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000463","count":2}]},{"hash":"1190312572587505975","title":"Actin dynamics and sarcomere organization","description":"This cluster centers on actin cytoskeleton remodeling and muscle structural assembly, highlighted by Arp2/3-mediated actin nucleation, skeletal muscle thin filament assembly, and sarcomere organization, with related processes like cell migration and cytokinesis, indicating a shared theme of actin-driven motility and contractile structure formation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090131","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0030240","count":2},{"id":"GO:0009825","count":2},{"id":"GO:1903475","count":2}]},{"hash":"338568023342397984","title":"Vacuolar Transport and Ion Homeostasis","description":"The proteins show a coherent emphasis on vacuolar processes (vacuole organization, vacuolar acidification, protein targeting to vacuole) and ion handling (sodium, copper) and proton-driven energetics, suggesting roles in vacuolar trafficking and maintaining ion balance via proton gradients. A couple of terms appear as unrelated or historical annotations, but do not derail the main theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007033","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0006814","count":1}]},{"hash":"442187461595762576","title":"Isoprenoid and Carbohydrate Metabolism","description":"These GO terms span multiple metabolic pathways, notably isoprenoid biosynthesis (IPP via MEP and mevalonate, farnesyl diphosphate, cholesterol biosynthesis) and various carbohydrate processes (galactose/glycolysis, galactitol, carbohydrate phosphorylation), plus GDP-L-fucose salvage. The proteins show no interaction edges, so there isn\u2019t a single tight pathway; instead the cluster seems to reflect broad metabolism enzymes across distinct routes. Isoprenoid and Carbohydrate Metabolism","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042352","count":1},{"id":"GO:0009092","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0019288","count":1},{"id":"GO:0019287","count":1}]},{"hash":"339800751794236921","title":"Nuclear transport and pore complex regulation","description":"These terms cluster around transport across the nuclear envelope and the organization of the nuclear pore complex, including nuclear import (NLS-bearing proteins, protein import into nucleus) and RNA export (tRNA export), plus related mitotic nuclear membrane disassembly and protein interaction terms that can support pore assembly. The common theme is regulated movement of macromolecules through the nucleus and the pore complex, with related assembly processes reflected by oligomerization terms. Therefore this name best captures the core function represented.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0075733","count":3},{"id":"GO:0010827","count":3},{"id":"GO:0006409","count":3},{"id":"GO:0042306","count":3},{"id":"GO:0007077","count":3}]},{"hash":"1172373728828842693","title":"Actin Cytoskeleton Remodeling and Cell Spreading","description":"This cluster is dominated by GO terms tied to actin cytoskeleton dynamics: regulation of cell spreading on substrates, barbed-end actin filament capping, mitotic actomyosin contractile ring assembly, and engulfment of apoptotic cells. Together with signals affecting GTPase activity and cell differentiation, these terms point to coordinated remodeling of the actin cytoskeleton governing cell morphology, division, and phagocytic processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":3},{"id":"GO:0070668","count":3},{"id":"GO:1900740","count":3},{"id":"GO:0048711","count":3},{"id":"GO:0060988","count":3}]},{"hash":"1067286812691678526","title":"Cell cycle and growth regulation","description":"The cluster centers on control of cell proliferation and growth, with terms such as positive regulation of GTPase activity, cell cycle, and contact inhibition, plus involvement in ubiquitin-dependent protein catabolic processes. These indicate coordinated signaling, degradation, and growth-control mechanisms that modulate proliferation. Some terms are obsolete or less directly connected (e.g., histone modification and mating projection growth), but the core theme remains cell cycle and growth regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0031064","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0042787","count":2}]},{"hash":"443619162726482555","title":"Hair follicle morphogenesis signaling","description":"The top GO terms strongly point to hair follicle and epidermal development, including hair follicle morphogenesis and positive regulation of hair follicle cell proliferation, plus signaling pathways such as ERK cascade and small GTPase\u2013mediated signaling that drive developmental processes. While there are broader nervous-system\u2013related terms present, the recurring hair follicle\u2013related morphogenesis and epidermal proliferation terms provide a coherent theme, suggesting this cluster represents proteins involved in hair follicle development and associated signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0060999","count":2},{"id":"GO:0046909","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0060501","count":2}]},{"hash":"92151889892179494","title":"Adhesion-Driven Developmental Morphogenesis","description":"The terms cluster around cell adhesion and signaling (focal adhesion, integrin regulation, ephrin signaling) and diverse morphogenetic processes (angiogenesis, vasculature and valve development, axon guidance, neural/heart development), suggesting a common theme of adhesion-mediated signaling guiding developmental tissue morphogenesis. T cell costimulation and forskolin response may reflect broader signaling context but do not override the adhesion/morphogenesis theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051893","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0031295","count":2},{"id":"GO:1904322","count":2},{"id":"GO:0033628","count":2}]},{"hash":"2140126246170848591","title":"Mechanotransduction and cell adhesion signaling","description":"The top terms cluster around sensing mechanical stimuli and transmitting signals via adhesion-related pathways (cellular response to mechanical stimulus, integrin-mediated signaling, epithelial polarity), suggesting a core theme of mechanotransduction and adhesion signaling. While other terms touch on immune or hormonal responses and neurotransmitter secretion, the strongest shared function points to cells converting mechanical cues into signaling and structural organization. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0010641","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0032496","count":2}]},{"hash":"1242562306570965959","title":"Unknown","description":"The terms span diverse developmental and regulatory processes (muscle differentiation, pancreas and nephron formation, lens proliferation, meiosis, RNA polymerase III assembly) and various regulatory pathways (sumoylation, glycogen catabolism, TNF production), with no coherent shared function linking them; thus no sensible label beyond Unknown.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:0031018","count":1},{"id":"GO:0033234","count":1},{"id":"GO:2000426","count":1},{"id":"GO:0072289","count":1}]},{"hash":"2182486475391394333","title":"Cell Polarity and Migration Signaling","description":"This cluster centers on cell polarity maintenance and migratory processes, with supporting roles for vesicle trafficking and small GTPase signaling. GO terms like maintenance of cell polarity, ameboidal-type cell migration, regulation of exocyst localization, Rab and Cdc42 signaling, and TORC2 pathway regulation point to a cohesive theme of coordinating polarity with actin dynamics and vesicle trafficking to drive migration, including neural development and neuromuscular balance contexts.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":2},{"id":"GO:0030011","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0007399","count":2},{"id":"GO:1904515","count":2}]},{"hash":"789914610067296153","title":"Unknown","description":"Top GO terms are highly diverse, spanning synaptic transmission, urokinase signaling, lipid clearance, DNA binding regulation, stilbenoid response, keratinocyte proliferation and cell migration control, apoptotic signaling, heparin response, and GPI-anchor attachment. There is no dominant shared function or pathway linking these terms, and the network shows no interactions, so a coherent functional theme cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007271","count":1},{"id":"GO:0038195","count":1},{"id":"GO:0090321","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0035634","count":1}]},{"hash":"256047770109367667","title":"Splicing regulation via spliceosome","description":"These proteins are linked to RNA splicing and its regulation, with GO terms including RNA splicing, positive regulation of mRNA splicing via spliceosome, and regulation of alternative mRNA splicing via spliceosome, indicating a shared role in splicing and RNA processing. Other terms like circadian rhythm and apoptotic signaling are present but secondary to the main splicing theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010446","count":1},{"id":"GO:0030521","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1514402752262227788","title":"TGF-\u03b2/BMP signaling regulators","description":"The GO terms show negative regulation of BMP signaling, SMAD complex assembly, and TGF-\u03b2 receptor signaling, suggesting a theme of modulating SMAD/TGF-\u03b2/BMP pathways. A dephosphorylation term also fits into signaling control. One outlier (photosystem-related) likely reflects annotation noise. Overall, the cluster seems to group proteins involved in regulating growth factor signaling, though the signal is modest with few shared terms.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042006","count":1},{"id":"GO:0030514","count":1},{"id":"GO:0010991","count":1},{"id":"GO:0080005","count":1},{"id":"GO:0035970","count":1}]},{"hash":"2024837582567607761","title":"Protein Homeostasis and Organelle Dynamics","description":"This cluster centers on regulation of protein turnover and trafficking (proteasomal degradation, ERAD, autophagy regulation) and on organelle dynamics (mitochondrial fusion, nuclear pore transport, spindle pole/body duplication), suggesting a unifying theme of cellular protein quality control and organelle maintenance, despite some diverse terms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901799","count":3},{"id":"GO:0090204","count":3},{"id":"GO:0010636","count":3},{"id":"GO:0030474","count":3},{"id":"GO:0034126","count":3}]},{"hash":"2102428516385199417","title":"Ubiquitination-Driven Stress Response","description":"The GO terms cluster around ubiquitin-like ISG15 conjugation and K6-linked ubiquitination, ER-stress\u2013induced apoptosis, histone modification, and inflammatory signaling, suggesting a module where post-translational modification governs stress responses and chromatin regulation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0031058","count":3},{"id":"GO:0045739","count":3},{"id":"GO:0032020","count":3},{"id":"GO:0071347","count":3}]},{"hash":"2080990732395045050","title":"Synaptic regulation and vesicle endocytosis","description":"The top GO terms are dominated by neuronal synapse functions and endocytic processes (regulation of clathrin-dependent endocytosis, synapse maturation, rhythmic synaptic transmission, regulation of synaptic vesicle clustering) with related neuronal context (dendrite regeneration, CNS myelin maintenance). This points to a cluster involved in synaptic maintenance and vesicle cycling rather than unrelated pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000369","count":2},{"id":"GO:0060074","count":2},{"id":"GO:0031104","count":2},{"id":"GO:0051895","count":1},{"id":"GO:0031271","count":1}]},{"hash":"1164621584359224946","title":"Post-transcriptional RNA processing and translation initiation","description":"The proteins cluster around RNA maturation and translation control: mRNA stabilization, splicing regulation, small-subunit processome assembly, and regulation of translational initiation and reinitiation, plus cytoplasmic stress granule localization, suggesting a shared role in post-transcriptional gene expression regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048255","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0097010","count":1},{"id":"GO:1903608","count":1},{"id":"GO:0048025","count":1}]},{"hash":"1810070777113209074","title":"Kidney and nephron morphogenesis","description":"The terms show a clear focus on kidney and nephron development (mesonephric duct development, metanephric tubule and collecting duct morphogenesis, kidney development). Other terms are minor or ancillary and do not override this nephrogenesis signal, so the cluster is best described as kidney/nephron morphogenesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:1900452","count":2},{"id":"GO:0072177","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060428","count":2}]},{"hash":"1284356889590935113","title":"Embryonic neurodevelopment and morphogenesis","description":"The top GO terms cluster around nervous system development and embryonic tissue morphogenesis (e.g., semaphorin-plexin signaling for axon guidance; nervous system development; cranial skeleton and otolith morphogenesis; kidney development), suggesting a shared theme of early developmental signaling and organ formation. Some terms are tangential (vitamin D metabolism, muscle filament assembly, T cell signaling), but the core signals point to embryonic development and neural patterning.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1902287","count":3},{"id":"GO:0007399","count":3},{"id":"GO:1904604","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0070640","count":3}]},{"hash":"1612008027672775493","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0007049","count":1},{"id":"GO:0009808","count":1},{"id":"GO:0051301","count":1}]},{"hash":"608205843249047575","title":"Motor Neuron Differentiation and Glutamate Secretion","description":"This cluster centers on neuronal development, particularly spinal cord and motor neuron differentiation, as reflected by terms like medial motor column neuron differentiation, visceral motor neuron differentiation, spinal cord motor neuron cell fate specification, and dendrite development. Glutamate secretion supports a role in synaptic transmission. The presence of Rho signaling regulation aligns with cytoskeletal dynamics underpinning neuron morphology. A few terms (phloem development and metanephric vesicle morphogenesis) are from non-neuronal lineages, likely indicating annotation breadth or cross-species annotations, but the dominant pattern points to motor neuron differentiation and neurotransmission.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904781","count":3},{"id":"GO:0021526","count":3},{"id":"GO:0021524","count":3},{"id":"GO:0014047","count":3},{"id":"GO:0016358","count":3}]},{"hash":"2157040623710351840","title":"Unknown","description":"The terms include cytolysis, neuron development (axonogenesis and dopaminergic differentiation), interneuron specification, growth hormone signaling, and other non-cohesive processes, with obsolete terms present as well. This scattered mix shows no single, shared function tying the proteins together, so a specific label isn\u2019t supported. Confidence: None","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0048936","count":1},{"id":"GO:0030042","count":1},{"id":"GO:0060396","count":1}]},{"hash":"1919161821679215097","title":"Ribosome biogenesis and translation","description":"Based on GO terms, this cluster centers on ribosome-related processes: translation (including cytoplasmic translation) and ribosome assembly/preribosome maturation, along with regulation of translation and ribosome biogenesis. While there are a few transcription-associated terms, the strongest, recurrent signals are ribosome production and translation control, supporting a name that ties together biogenesis of ribosomes and protein synthesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042255","count":1},{"id":"GO:0006353","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0060702","count":1}]},{"hash":"1423870516087184874","title":"Tfh cell and germinal center regulation","description":"The most represented GO terms center on adaptive immunity, especially T follicular helper cell differentiation and germinal center formation/regulation, plus IgE isotype switching. Ubiquitination-related terms likely reflect regulation of signaling and protein turnover in these pathways, pointing to a humoral immune response theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002635","count":2},{"id":"GO:0033092","count":2},{"id":"GO:0048294","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0060972","count":2}]},{"hash":"32971202600070309","title":"Unknown","description":"The assigned GO terms cover a broad and incongruous mix of plant secondary metabolism, bacterial biosynthesis, basic carbohydrate metabolism, neural protein localization, and general cell cycle processes. With no consistent functional theme or interaction pattern across the proteins (edges and triangles are zero), this cluster appears to be noise or a set of loosely related annotations rather than a cohesive module.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0009808","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0033485","count":2},{"id":"GO:0005975","count":2}]},{"hash":"2064674197060022771","title":"Cytoskeletal Dynamics and Stress Response","description":"The top GO terms point to cytoskeletal regulation (positive regulation of GTPase activity, barbed-end actin filament capping, microtubule severing) together with cellular stress pathways (ER-stress\u2013induced apoptotic signaling, DNA damage checkpoint signaling, ubiquitin-dependent protein turnover). This suggests a theme of cytoskeletal remodeling under stress and protein quality control, though a few terms (pigmentation, SREBP signaling) may be less connected. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0040020","count":1},{"id":"GO:0070059","count":1},{"id":"GO:0051016","count":1}]},{"hash":"1573126095977678143","title":"Embryonic cell adhesion and migration","description":"These proteins are linked to developmental processes involving cell\u2013cell adhesion and movement, as reflected by GO terms such as axonal defasciculation, cell migration in sprouting angiogenesis, heterophilic cell\u2013cell adhesion, and receptor clustering. Additional terms point to broader differentiation and tissue development, but the recurring theme centers on adhesion-mediated migration during embryogenesis, making this a suitable, specific label. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007414","count":2},{"id":"GO:0002042","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0043277","count":2}]},{"hash":"1896972078759663545","title":"Collagen Biosynthesis and Ossification","description":"This cluster centers on collagen production and bone-related development, highlighted by terms for collagen biosynthetic processes and intramembranous ossification, with supporting signals in collagen-activated receptor signaling and related morphogenesis terms. A few kidney development and signaling terms are present, but the dominant theme aligns with connective tissue formation and ossification.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070994","count":2},{"id":"GO:0090238","count":2},{"id":"GO:0038063","count":2},{"id":"GO:0034381","count":2},{"id":"GO:0071230","count":2}]},{"hash":"1216046572570631223","title":"Calcium-Dependent Signaling in Development","description":"The top GO terms point to calcium signaling and calcineurin-NFAT regulation (postsynaptic calcium concentration, NFAT cascade), suggesting a calcium-mediated signaling theme. Additional terms touch on developmental processes ( EMT, myelination, fiber-type transitions) and SMAD/TGF\u03b2 signaling, which can intersect with calcium signaling. While the connections are plausible, the set is diverse and not tightly cohesive, so the label is cautious.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903799","count":3},{"id":"GO:0051533","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0099566","count":2},{"id":"GO:0007183","count":2}]},{"hash":"1968870670132714267","title":"Motor neuron differentiation and dendrite development","description":"The top GO terms are dominated by motor neuron development and specification (medial spinal cord motor neurons, visceral motor neurons, spinal cord motor neuron cell fate) along with neuronal features such as dendrite development and glutamate secretion, suggesting a neuronal/motor neuron function cluster. Some terms like phloem development and renal morphogenesis are present but less central, so the overall theme seems to be motor neuron differentiation and associated synaptic activity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904781","count":3},{"id":"GO:0021526","count":3},{"id":"GO:0021524","count":3},{"id":"GO:0014047","count":3},{"id":"GO:0016358","count":3}]},{"hash":"677488260219400819","title":"Cell Fate Determination and Differentiation","description":"The top GO terms point to broad developmental roles: multiple differentiation programs across tissues (angioblast, goblet cell, mammary epithelium, hematopoietic lineages, blastocyst development) and cell fate determination, coupled with transcriptional regulation and epigenetic control (negative regulation of transcription by RNA Pol II and CpG island methylation). This suggests the cluster centers on genes governing developmental differentiation and lineage specification rather than a single tissue. Confidence: Medium.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0035779","count":2},{"id":"GO:0060480","count":2},{"id":"GO:0060803","count":2},{"id":"GO:0044027","count":2}]},{"hash":"744951350473058348","title":"GPCR Signaling in Vascular and Immune Regulation","description":"The cluster is dominated by GPCR-related GO terms, including G protein-coupled receptor signaling, adenylate cyclase\u2013activating pathways, and adenosine receptor signaling, with additional terms on vascular permeability and neutrophil recruitment/killing. This points to a theme where GPCR signaling modulates both vascular properties and immune cell behavior, rather than a single metabolic process.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035645","count":3},{"id":"GO:1903141","count":3},{"id":"GO:0016056","count":3},{"id":"GO:0007202","count":3},{"id":"GO:0010579","count":3}]},{"hash":"80749031515671527","title":"Cytoskeletal organization and cell motility","description":"This cluster\u2019s GO terms are dominated by cytoskeletal dynamics and movement processes\u2014stress fiber assembly, regulation of cell spreading and adhesion, ameboid-type migration, and maintenance of cell polarity\u2014often coordinated by GTPase signaling. Although a couple entries relate to stress responses in muscle or bone maturation, the core signal points to actin cytoskeleton organization and cell migration, making a cohesive interpretation as a cytoskeleton/motility cluster reasonable.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043149","count":3},{"id":"GO:1903244","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0042176","count":2},{"id":"GO:0030011","count":2}]},{"hash":"1051135607495633349","title":"Peptidyl Lysine/Arginine and rRNA Methylation","description":"The top GO terms are dominated by methylation-related processes: peptidyl-lysine methylation (mono- and dimethylation), peptidyl-arginine methylation, and rRNA methylation, indicating enzymes that modify proteins and RNA. Minor hits include DNA replication, sarcosine metabolism, and biosynthetic processes, but they are far less represented. Therefore, the cluster most plausibly groups proteins involved in methyltransferase activity and methylation modifications.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1901052","count":1},{"id":"GO:0046690","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0018027","count":1}]},{"hash":"1464813963172408360","title":"Developmental Regulation and ER-Stress Response","description":"The top GO terms are dominated by developmental processes (multicellular organism development, forebrain development, neural tube closure, skeletal system development), with a core annotation of DNA-templated transcription, suggesting a cluster of proteins involved in developmental gene regulation. The presence of an intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress adds a stress-response dimension, indicating these proteins may link development with ER-stress signaling. A few terms related to cadmium response and bacterial defense appear as outliers but do not define the core theme. Overall, the cluster seems to reflect developmentally regulated transcription with some ER-stress\u2013related apoptosis signals.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0001501","count":2}]},{"hash":"2018673775743997827","title":"Apoptosis and Epithelial Cell Migration","description":"These proteins show a clear pattern of involvement in apoptotic processes (hepatocyte and myeloid) along with roles in epithelial cell polarity and cell migration. The co-occurrence of apoptosis-related terms with polarity and migration terms points to functions in cytoskeleton remodeling and tissue remodeling during cell death or development. Some noise terms exist (obsolete terms, a floral organ term), but the core signal supports a theme of programmed cell death coupled with cell movement/polarity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0035021","count":1}]},{"hash":"703395759333722343","title":"Bacterial cell wall and glycan biosynthesis","description":"These terms cluster around the biosynthesis of sugar components (UDP-N-acetylglucosamine), lipopolysaccharide and O-antigen production, and cell wall organization, with related carbohydrate metabolism terms like glycogen and glucose-1-phosphate pathways. Together they point to a shared theme of glycan construction and cell envelope assembly typical of bacteria, even though the terms are diverse and not tightly linked by a single function. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006048","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0009590","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0019255","count":1}]},{"hash":"777547955920400610","title":"Seed coat mucilage biosynthesis and AGP metabolism","description":"The cluster's top GO terms center on seed coat mucilage biosynthesis and arabinogalactan protein (AGP) metabolic processes, with related polysaccharide biosynthesis and cell-wall components (e.g., poly-N-acetyllactosamine, Lewis a epitope). Additional plant-development terms like root hair cell development support a cohesive plant cell-wall\u2013related function, suggesting these proteins function together in seed coat mucilage formation and AGP-based cell wall remodeling.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":2},{"id":"GO:0048354","count":2},{"id":"GO:0007386","count":2},{"id":"GO:0060576","count":2},{"id":"GO:0010405","count":2}]},{"hash":"1868137066834165613","title":"Unknown","description":"Top GO terms span diverse processes (mitosis, GPCR signaling, immunity, muscle/bone/adipose development, chromosomal cohesion, phosphorylation); no single cohesive function links these terms, so a meaningful label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007051","count":2},{"id":"GO:0007217","count":2},{"id":"GO:0085033","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0001957","count":2}]},{"hash":"57930809072851171","title":"Unknown","description":"There are three proteins with only two edges and no triangles, and no GO terms are provided in Top Terms, so there is no shared functional signal to identify a coherent biological theme. Therefore, I cannot assign a meaningful label beyond Unknown.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1071937531167625024","title":"Mitochondrial ribosome biogenesis and translation","description":"This cluster centers on ribosome assembly and translation processes, with terms like maturation of SSU rRNA, translation, and regulation of translation, and also includes mitochondrial respiratory chain complex assembly, suggesting a mitochondrion-associated ribosome/translation role. A single mitochondrial/translation-focused theme is plausible, though one term on RNA splicing regulation introduces some diversity; overall the motif is ribosome biogenesis and protein synthesis related to mitochondria.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033108","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0033119","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0006417","count":1}]},{"hash":"650679608961756306","title":"Unknown","description":"The GO terms span multiple, loosely related areas: several distinct catabolic processes (lipid/triglyceride, chlorophyll, cellulose, phosphatidylserine), and various signaling/immune/behavioral functions (endocannabinoid signaling regulation, T cell costimulation, endothelial migration, cell adhesion, fear response). There is no single coherent biological theme connecting all proteins, and the network has no edges, so a concise, representative label is not supported.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000124","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0031295","count":2},{"id":"GO:0043542","count":2}]},{"hash":"2264094851838682533","title":"Cell Polarity and Migration Signaling","description":"The proteins cluster around establishing and maintaining cell polarity, cytoskeletal dynamics, and vesicle trafficking (Rab and Cdc42 signaling, TORC2 regulation, exocyst localization), driving adhesion-dependent spreading and ameboid migration; the presence of nervous system development terms suggests roles in neuronal polarization and migration, reinforcing a polarity/migration-centric theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042176","count":3},{"id":"GO:0030011","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0007399","count":3},{"id":"GO:1904515","count":3}]},{"hash":"629221967566813580","title":"Epithelial tissue remodeling","description":"This cluster\u2019s terms point to epithelial/tissue remodeling and differentiation (keratinization, cell envelope organization, vascular remodeling) with ECM cross-linking and immune/modulatory processes (transglutaminase cross-links, apoptotic clearance, inflammatory response), suggesting a cohesive theme around epithelial remodeling and associated inflammation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051482","count":1},{"id":"GO:0001974","count":1},{"id":"GO:0031424","count":1},{"id":"GO:0051561","count":1},{"id":"GO:0043163","count":1}]},{"hash":"147814475097525417","title":"Metabolic energy homeostasis and lipid signaling","description":"The cluster is enriched for GO terms centered on lipid metabolism and energy balance (positive regulation of cholesterol efflux, fatty acid oxidation, energy homeostasis, insulin signaling) suggesting a core role in metabolic regulation. Additional terms point to immune-metabolic crosstalk (negative regulation of TLR4 signaling, foam cell differentiation) and endocrine influences (estrogen response, pancreatic cell regulation), reinforcing a theme of coordinated lipid handling and energy regulation with hormonal and immune modulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010875","count":3},{"id":"GO:0046321","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0090341","count":2},{"id":"GO:2000505","count":2}]},{"hash":"1671373953902469262","title":"Unknown","description":"The GO terms span oxidative stress detection, signaling pathway regulation, cell adhesion, synapse assembly, growth/metabolic processes, and neuronal differentiation, with no single cohesive function dominating. This makes it difficult to assign a precise, representative label to the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070994","count":2},{"id":"GO:0034115","count":2},{"id":"GO:2000584","count":2},{"id":"GO:0051965","count":2},{"id":"GO:2000590","count":2}]},{"hash":"1304105903527052905","title":"Adaptive immune signaling and ubiquitination","description":"The terms converge on adaptive immunity (adaptive immune response, V(D)J recombination) and signaling through NF-kappaB, with ubiquitination-related processes (K6-linked ubiquitination, ubiquitin-dependent protein catabolic) supporting immune regulation. This suggests proteins involved in immune signaling and regulation, particularly in lymphocyte-related processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070512","count":3},{"id":"GO:2000620","count":3},{"id":"GO:0033151","count":3}]},{"hash":"586377112763178026","title":"Negative Regulation of Signaling and Cytoskeleton","description":"This cluster is dominated by GO terms describing negative regulation of multiple signaling pathways (integrin-mediated signaling, PDGF receptor signaling, TGF-beta receptor signaling) and is complemented by terms related to cytoskeletal organization (stress fiber assembly). The combination suggests proteins that modulate signaling while coordinating cytoskeletal remodeling during development and cell adhesion processes, making the name a focused summary of the shared function.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001045","count":2},{"id":"GO:1904753","count":2},{"id":"GO:0010735","count":2},{"id":"GO:0043954","count":2},{"id":"GO:0010832","count":2}]},{"hash":"724245627636431632","title":"Auditory system ion transport and ear development","description":"The top GO terms are strongly centered on auditory biology (response to auditory stimulus; inner ear receptor cell development) and ion homeostasis/transport (sodium, potassium, manganese ions), suggesting a cluster of proteins involved in auditory function and ion regulation. While some terms relate to other tissues (e.g., cardiac), the dominant signal points to the inner ear and ion transport, supporting a label focused on the auditory system. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0010996","count":3},{"id":"GO:0002028","count":3},{"id":"GO:0098736","count":3},{"id":"GO:0033292","count":3},{"id":"GO:1903243","count":3}]},{"hash":"1952536405934438815","title":"Immune signaling and lymphocyte development via ubiquitination","description":"The set shows immune-related processes such as V(D)J recombination, lymph node development, and regulation of germinal centers, alongside NF-kappaB signaling, and multiple ubiquitin-related processes (K6-linked ubiquitination, H2A-K119 monoubiquitination, and ubiquitin-dependent protein catabolic pathways), indicating a theme of ubiquitin-mediated regulation of lymphocyte development and signaling. Note: some GO terms are obsolete or cross-species annotations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007182","count":3},{"id":"GO:0007250","count":3},{"id":"GO:0042787","count":3},{"id":"GO:2000653","count":3},{"id":"GO:0048535","count":3}]},{"hash":"580526066627152213","title":"T cell\u2013mediated immunity and lymphoid development","description":"Dominant GO terms center on T cell biology (T cell proliferation, T cell homeostasis), lymphoid tissue development (lymph node development), and defense against viruses, with ubiquitination terms likely reflecting antigen processing and immune signaling.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0009896","count":3},{"id":"GO:0042098","count":3},{"id":"GO:0007014","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0048535","count":3}]},{"hash":"1133373403687754375","title":"Unknown","description":"The top GO terms span chromatin regulation, X chromosome inactivation, immune recombination, protein ubiquitination, and cytoskeletal localization, with no cohesive common function tying these proteins together.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":3},{"id":"GO:0060816","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0097271","count":2},{"id":"GO:0042787","count":2}]},{"hash":"2012071203755160224","title":"Developmental transcription regulation","description":"The terms point to transcriptional regulation (DNA-templated transcription and negative regulation of transcription) alongside diverse developmental processes (endocrine, pancreatic, placental, cartilage development, left-right patterning). This suggests proteins involved in controlling gene expression during development, so a concise label is \"Developmental transcription regulation.\"","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007576","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0000122","count":2}]},{"hash":"2189171465051914231","title":"Unknown","description":"The GO terms span lipid remodeling, immune signaling, mitochondrial energy metabolism, and development, with no single cohesive function tying all three proteins together; thus no reliable, specific label can be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036151","count":3},{"id":"GO:0070970","count":3},{"id":"GO:0006663","count":3},{"id":"GO:0010143","count":3},{"id":"GO:0035965","count":3}]}]