[{"hash":"1075558384453788971","title":"Lipid and steroid biosynthesis","description":"This cluster is dominated by GO terms for biosynthesis of lipids and steroid compounds, including sphingolipid, mycolic acid, testosterone, estrogen, and androgen biosynthesis, with additional links to poly-hydroxybutyrate and antibiotic biosynthesis. The core theme is production of lipid and steroid metabolites across diverse organisms, justifying a label focused on lipid and steroid biosynthesis. ","confidence":"High","size":29,"edges":251,"triangles":882,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0042619","count":11},{"id":"GO:0017000","count":10},{"id":"GO:0061370","count":9},{"id":"GO:0071768","count":9}]},{"hash":"673277411725775878","title":"Central carbon metabolism and redox balance","description":"This cluster is enriched for core metabolic pathways such as glycolysis, the TCA cycle, and 2-oxoglutarate metabolism, along with glutathione metabolism and retinol metabolism, pointing to energy production and redox/homeostatic processes. The translation term appears but is less representative of the dominant theme, suggesting a metabolic-focused group with some annotation noise.","confidence":"Medium","size":29,"edges":392,"triangles":3306,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0006099","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0006537","count":2}]},{"hash":"1628058653723639588","title":"Bacterial envelope and antibiotic biosynthesis","description":"This cluster is enriched for GO terms related to cell envelope construction (lipoteichoic acid biosynthesis, lipid A biosynthesis, and cell wall organization) as well as metabolic and biosynthetic processes (fatty acid biosynthesis, nonribosomal peptide biosynthesis activation, and antibiotic biosynthetic processes). While translation is present, the dominant themes point to envelope biosynthesis and antibiotic production, suggesting a coherent bacterial biosynthetic module involved in building the cell envelope and producing peptide-based antibiotics.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0017000","count":3},{"id":"GO:0071555","count":2},{"id":"GO:0006633","count":2},{"id":"GO:0043041","count":2}]},{"hash":"468486844432367268","title":"Broad signaling in immune and sensory systems","description":"This cluster shows a mix of immune signaling (T cell receptor signaling, monocyte differentiation, GM-CSF stimulus), sensory-related terms (smell perception, retinal cone development), and general transduction pathways (cGMP signaling, transcription). The common thread appears to be signaling pathways that translate extracellular cues into cellular responses across diverse tissues, rather than a single, tightly knit pathway. Confidence: Medium","confidence":"","size":29,"edges":47,"triangles":20,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":8},{"id":"GO:0010754","count":7},{"id":"GO:0007608","count":7},{"id":"GO:0071321","count":7},{"id":"GO:0006351","count":6}]},{"hash":"1019664020788670382","title":"Ubiquitin-Dependent Proteolysis and Proteostasis","description":"This cluster is dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic processes, ERAD, and polyubiquitination, plus autoubiquitination, with links to regulation of JNK and TNF signaling and histone turnover, indicating a cohesive module of ubiquitin-mediated protein degradation and turnover.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":21},{"id":"GO:0030433","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0046328","count":10},{"id":"GO:0036205","count":10}]},{"hash":"844312837066790681","title":"Inner ear development and glutamatergic synapse assembly","description":"This cluster centers on inner ear and nervous system development, with strong signals for labyrinthine layer formation and glutamatergic synapse transmission, plus pathways for synapse assembly. The inclusion of integrin signaling and extracellular matrix\u2013related terms (collagen biosynthesis, ossification) aligns with tissue remodeling and ECM interactions during ear morphogenesis. Overall, the terms cohere around ear development and sensory neuron connectivity.","confidence":"High","size":29,"edges":9,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0060711","count":4},{"id":"GO:0035249","count":4},{"id":"GO:0007229","count":4}]},{"hash":"169926487738494140","title":"Neural Development and Cell Proliferation","description":"This cluster shows strong enrichment for neural development terms (axonogenesis, Schwann cell development, visual perception, excitatory postsynaptic potential) and cranial skeleton morphogenesis, plus angiogenesis, all in the context of DNA replication and mitotic cell cycle. The convergence suggests proteins coordinating neural differentiation and growth with vascular and skeletal formation during embryogenesis, making the label fitting and representative.","confidence":"High","size":29,"edges":22,"triangles":2,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001525","count":16},{"id":"GO:0006260","count":15},{"id":"GO:0048701","count":15},{"id":"GO:0060079","count":15},{"id":"GO:0014044","count":15}]},{"hash":"624408171200872210","title":"DNA Replication and Telomere Maintenance","description":"This cluster is dominated by GO terms related to DNA replication and telomere maintenance (DNA recombination, RNA primer removal in mitotic replication, telomere maintenance, and telomerase-related regulation), suggesting a core theme of genomic maintenance. There are additional signals for transcription regulation and cell wall-related processes (cell wall organization, glycosylation) and infection structure formation, which may reflect organism-specific biology or secondary roles linked to pathogenicity. Overall, the core function appears to center on DNA replication/maintenance with auxiliary cell wall/infection traits.","confidence":"Medium","size":29,"edges":27,"triangles":8,"max_degree":9,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0045944","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0016266","count":3}]},{"hash":"2295906139380290414","title":"Neuronal development and signaling","description":"The strongest terms point to nervous system and brain development, plus dendrite development and neuronal signaling, suggesting this cluster centers on neural differentiation and communication. Other terms (ubiquitination, cell cycle, apoptosis) are broad processes that can accompany development, but do not override the neural-centric themes. Confidence: Medium","confidence":"","size":29,"edges":349,"triangles":2384,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":11},{"id":"GO:0007399","count":10},{"id":"GO:0007420","count":10},{"id":"GO:0031384","count":10},{"id":"GO:0010796","count":10}]},{"hash":"1863715024093479146","title":"Mitochondrial translation and energy metabolism","description":"This cluster is dominated by GO terms for translation (cytoplasmic and mitochondrial), mitochondrial translation and elongation, and mitochondrial energy pathways (ATP synthase assembly, TCA cycle). These terms together point to mitochondrial protein synthesis coupled to energy production, with a minor presence of related regulatory processes, suggesting a cohesive theme around mitochondrial function in translation and metabolism.","confidence":"High","size":29,"edges":403,"triangles":3574,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0006450","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0008203","count":2}]},{"hash":"203445072609988878","title":"Developmental transcription and differentiation","description":"Based on GO terms, the cluster centers on transcription by RNA polymerase II and broad developmental differentiation across skeletal muscle, lung vasculature, floor plate, amacrine cells, melanocytes, and somitogenesis. This pattern suggests genes involved in general developmental programs regulated at the transcriptional level, rather than a single tissue-specific function.","confidence":"High","size":29,"edges":375,"triangles":3201,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0006351","count":15},{"id":"GO:0035914","count":13},{"id":"GO:2001016","count":13},{"id":"GO:0045663","count":12}]},{"hash":"790461646858002995","title":"Viral genome integration and latency","description":"The top GO terms hinge on viral/proviral processes: DNA integration, establishment of integrated proviral latency, and viral entry into the host nucleus, complemented by DNA recombination and RNA-templated DNA biosynthesis, as well as transcriptional steps. These collectively point to a cluster of proteins involved in viral genome integration, maintenance of provirus, and interaction with host transcription machinery, with auxiliary terms like mRNA capping reflecting processing of viral transcripts. Therefore, the cluster best represents viral genome integration and latency functions.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0075732","count":4}]},{"hash":"1585927472676368296","title":"Forebrain Synapse Formation and Social Behavior","description":"Based on GO terms such as synapse organization, receptor clustering, dendritic spine morphogenesis, protein localization to synapse, forebrain development, and social behavior, the proteins appear to participate in synapse formation and organization in the forebrain, including regulatory processes like JNK signaling and receptor localization that underpin neural development and circuits related to social behavior.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":4},{"id":"GO:0050808","count":3},{"id":"GO:0046328","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1834014399368161039","title":"Innate immune signaling and leukocyte adhesion","description":"The cluster features multiple immune-related GO terms such as stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, leukocyte tethering/rolling, and complement activation via the lectin pathway, indicating a core theme of innate immune activation and leukocyte recruitment; a few kidney-development terms are present but appear less representative.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0051873","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0050901","count":3}]},{"hash":"107997939672635966","title":"Membrane Transporters for Ions and Metabolites","description":"The top GO terms show a clear enrichment for transmembrane transport of a range of substrates (ions like Na+ and K+, nitrate, sialic acid, vitamins, small metabolites, and xenobiotics) plus a term for neurotransmitter loading into synaptic vesicles. Together these point to a cluster of membrane transporter proteins that move diverse solutes across membranes and into vesicles, rather than a single substrate pathway. Confidence: High","confidence":"","size":29,"edges":64,"triangles":95,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":13},{"id":"GO:0006855","count":13},{"id":"GO:0098700","count":13},{"id":"GO:0035725","count":13},{"id":"GO:0015739","count":13}]},{"hash":"2034069386161573971","title":"Developmental signaling and neural plasticity","description":"This cluster\u2019s topGO terms center on major signaling pathways (Wnt, Notch) coupled with developmental processes (lens fiber differentiation, imaginal disc-derived morphogenesis) and neural function (synaptic plasticity, long-term depression, social behavior). The combination suggests proteins involved in coordinating development with neural circuit modulation, rather than a single, narrow pathway. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0060292","count":3}]},{"hash":"67291277822951881","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms tied to embryonic development and organ formation across tissues, including palate (roof of mouth) development, hair follicle morphogenesis, mesoderm development, left-right pattern formation, trophoblast differentiation, and endocrine system development. These terms point to a common theme of embryogenesis and organ patterning rather than a single pathway, suggesting a developmental module. The lack of network edges does not negate this interpretation, as the proteins may share functional roles reflected in GO annotations rather than direct interactions. Some terms (e.g., vitamin D biosynthesis regulation) may reflect broader regulatory contexts during development, but the overall signal centers on embryonic development and organogenesis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":27},{"id":"GO:0031069","count":25},{"id":"GO:0007498","count":25},{"id":"GO:1903026","count":25},{"id":"GO:0010957","count":25}]},{"hash":"1105695672217297031","title":"Embryonic Development and Morphogenesis","description":"The proteins are annotated with GO terms tied to embryonic development and tissue morphogenesis\u2014mesoderm development, craniofacial and cartilage morphogenesis, hair follicle development, endocardial EMT, and endocrine pancreas development\u2014indicating a common theme of developmental morphogenesis across multiple organ systems.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":29},{"id":"GO:0010957","count":29},{"id":"GO:1903026","count":29},{"id":"GO:0035270","count":29},{"id":"GO:0031069","count":29}]},{"hash":"1203417750051625731","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The top GO terms are dominated by ubiquitination and proteasomal turnover, including K11-linked ubiquitination, SCF-dependent ubiquitin-proteasomal degradation, and ubiquitin-dependent protein catabolic processes. This points to a cohesive function in marking proteins for degradation, with additional terms related to cell cycle and neural development likely reflecting regulated turnover during proliferation and nervous system maturation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050843","count":2},{"id":"GO:0017183","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070979","count":2}]},{"hash":"2186418221159722862","title":"ECM remodeling, adhesion, and coagulation","description":"The cluster is dominated by terms for metallopeptidase activity, hyaluronan metabolism, integrin signaling, and cell migration/adhesion, plus regulation of ECM assembly, which together point to extracellular matrix remodeling and cell\u2013ECM interactions. The inclusion of complement activation and blood coagulation suggests involvement in tissue injury/inflammation contexts where ECM remodeling and cell adhesion coordinate with coagulation processes.","confidence":"High","size":28,"edges":15,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905050","count":8},{"id":"GO:0030212","count":8},{"id":"GO:0007229","count":8},{"id":"GO:0045123","count":7},{"id":"GO:0006956","count":7}]},{"hash":"100780311629831445","title":"Ion and Sugar Transmembrane Transporters","description":"This cluster is unified by GO terms describing transmembrane transport of a range of substrates\u2014ions (potassium, sodium, nitrate, nitrite) and sugars (galactose, arabinose, fucose, sialic acid)\u2014as well as neurotransmitter loading into synaptic vesicles. The prominence of transport-related processes, including vesicular neurotransmitter handling, strongly indicates membrane transporter proteins rather than enzymes or signaling factors. ","confidence":"High","size":28,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":11},{"id":"GO:0035725","count":11},{"id":"GO:0098700","count":10},{"id":"GO:0015757","count":10},{"id":"GO:0042891","count":10}]},{"hash":"1664397818887970116","title":"Placental and Embryonic Development","description":"The dominant GO terms point to placental/trophoblast differentiation, embryonic placenta and endocrine system development, left-right patterning, and heart/skeletal morphogenesis, indicating a coherent embryonic development module. Minor housekeeping terms are present but do not define the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0060707","count":15},{"id":"GO:0003323","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0060972","count":14},{"id":"GO:0035270","count":14}]},{"hash":"775088749165680926","title":"Inflammation and tissue remodeling","description":"Most terms point to inflammation and remodeling of tissue and vasculature, including inflammatory response, collagen fibril organization, and negative regulation of angiogenesis, with platelet activating factor biosynthesis reinforcing inflammatory signaling. Additional signals touch on oxidative stress and signaling pathways, supporting a vascular/ECM remodeling theme, though a few GO terms are obsolete.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042542","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0006663","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0006954","count":2}]},{"hash":"228460842934774359","title":"ECM remodeling and skeletal development","description":"The cluster\u2019s top GO terms center on extracellular matrix components and remodeling (collagen catabolic process, integrin biosynthetic process, basement membrane development, cuticle development tied to collagen) and skeletal tissue formation (intramembranous ossification, cartilage development in endochondral bone morphogenesis). While a few terms relate to immune processes, the predominant signal is connective tissue organization and bone/cartilage development, suggesting a cohesive theme of ECM remodeling associated with skeletal formation.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0032836","count":4},{"id":"GO:0030574","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0051873","count":3},{"id":"GO:0060351","count":3}]},{"hash":"1142791515165569123","title":"GPCR-cAMP\u2013driven blood pressure regulation","description":"The top terms cluster around G protein-coupled receptor signaling that activates adenylate cyclase, with downstream effects on vascular tone (vasoconstriction, blood pressure) and kidney function (glomerular filtration). This suggests proteins involved in GPCR-cAMP signaling pathways governing cardiovascular and renal regulation. Some other terms (electron transport chain, light absorption) reflect broader cellular functions but do not negate the core GPCR-cAMP, blood pressure theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":24},{"id":"GO:0010579","count":24},{"id":"GO:0022900","count":24},{"id":"GO:0007190","count":23},{"id":"GO:0003093","count":21}]},{"hash":"116557160400904110","title":"Lipid Signaling and Detox Metabolism","description":"The cluster is enriched for lipid-derived signaling terms (prostaglandin biosynthesis and epoxygenase P450 pathway) alongside detoxification and stress-response processes (xenobiotic catabolic process, cellular oxidant detoxification, and response to immobilization stress), suggesting a cohesive theme around lipid signaling in stress and metabolic detoxification, with some developmental context. ","confidence":"Medium","size":28,"edges":20,"triangles":2,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":6},{"id":"GO:0001516","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0042738","count":5},{"id":"GO:0030713","count":5}]},{"hash":"1753488465917853288","title":"Brain and inner ear development via Wnt signaling","description":"The cluster is dominated by terms for brain development, midbrain development, inner ear development, and the Wnt signaling pathway, pointing to a core role in neural and sensory organ development. Additional terms touch on vascular and other developmental contexts, but the strongest, most coherent theme is neural/ear development with Wnt signaling, justifying this label.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:1903142","count":8},{"id":"GO:0032496","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0030194","count":6}]},{"hash":"317861195100149580","title":"Spliceosome-mediated mRNA processing and post-transcriptional regulation","description":"The cluster is dominated by GO terms for spliceosome-driven mRNA splicing, mRNA export, stability, and miRNA-mediated translational silencing, indicating a coherent set of splicing and post-transcriptional regulators.","confidence":"High","size":28,"edges":121,"triangles":297,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0010610","count":11},{"id":"GO:0035278","count":10},{"id":"GO:0006406","count":10}]},{"hash":"1214828651805818708","title":"Splicing and mRNA stability regulation","description":"Dominant theme is RNA processing and post-transcriptional regulation: splicing (via spliceosome), mRNA stability/mRNA stabilization, polyadenylation, and translation reinitiation, including stress-responsive regulation and regulatory ncRNAs. This points to proteins involved in mRNA maturation and control of translation rather than transcription or protein turnover.","confidence":"High","size":28,"edges":344,"triangles":2637,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":21},{"id":"GO:0006378","count":16},{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:1901407","count":15}]},{"hash":"1099721117303279768","title":"Neuroinflammation and CNS development","description":"This cluster combines immune/inflammatory terms (inflammatory response, NLRP3 inflammasome assembly, macrophage activation, defense response to virus) with neural development and synapse-related terms (corpus callosum development, axonal fasciculation, positive regulation of synapse assembly, axon regeneration). The overlap suggests microglia- or macrophage-driven inflammation that interfaces with CNS development and synaptic maturation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":9},{"id":"GO:0042346","count":9},{"id":"GO:0022038","count":9},{"id":"GO:0048681","count":9},{"id":"GO:0007413","count":9}]},{"hash":"116864357312040971","title":"Nucleolar ribosome biogenesis and RNA processing","description":"The terms cluster around ribosome biogenesis and RNA metabolism (mRNA processing, rRNA and tRNA transcription, ribosomal subunit biogenesis) with hints of nucleolar activity (rRNA transcription by RNA Pol I and tRNA transcription by RNA Pol III), pointing to a nucleolar ribosome biogenesis and RNA processing theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0007049","count":2}]},{"hash":"486280433252359429","title":"Neurodevelopment and mitosis regulation","description":"The top GO terms point to neural development (spinal cord and brain development) alongside cell division and mitotic processes (mitotic cell cycle, spindle orientation, APC-dependent catabolic process, microtubule-based movement), with TORC1 signaling and GTPase activity regulation indicating growth and cytoskeletal control. This suggests a cluster of proteins involved in neural development that also coordinate cell division and cytoskeletal dynamics. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021510","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007018","count":3}]},{"hash":"1300967871290458105","title":"Eye Development and Visual System","description":"This cluster is strongly tied to eye/visual system biology, with GO terms for lens fiber cell differentiation, retina development in camera-type eye, and visual perception, suggesting proteins involved in eye development and vision. Additional terms on multicellular development and regulation of GTPase activity may reflect signaling during development, but the eye-related terms provide a coherent core theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0000278","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0007601","count":4}]},{"hash":"127790993468879480","title":"Nuclear import and chromatin assembly","description":"The cluster is dominated by GO terms about moving proteins into the nucleus (NLS-bearing import, ribosomal protein import, nuclear pore complex assembly) and by chromatin-related processes (DNA replication-dependent chromatin assembly, centromeric cohesion, meiotic cohesion). Some desumoylation regulation and GTPase activity terms appear as regulators, with a few stress-related terms as background noise. Overall, the pattern supports a theme of nuclear transport coupled with chromatin organization.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060188","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0051292","count":5},{"id":"GO:0051754","count":5},{"id":"GO:0000060","count":5}]},{"hash":"1954929530384060972","title":"Plant protein turnover and stress response","description":"The dominant terms point to autophagy (autophagosome maturation), ubiquitin-mediated degradation (K11-linked), and ER-Golgi vesicle transport, with oxidative stress response and photosynthesis, fitting a plant context of protein quality control and stress adaptation. Some terms (interferon response, prostate development) are unlikely in plants and may reflect annotation noise, but the core theme remains protein turnover and stress response in plants.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0045732","count":3},{"id":"GO:0097352","count":3},{"id":"GO:0015979","count":3},{"id":"GO:0034599","count":3}]},{"hash":"648781820469225197","title":"Lipid metabolism and stress response","description":"The cluster is enriched for lipid-related processes (carnitine metabolic process, fatty acid beta-oxidation, steroid biosynthesis) alongside stress and detox signals (response to cold, xenobiotic stimulus, redox). Translation and mRNA decay terms are present but appear less central; overall, the pattern points to metabolism tied to stress adaptation.","confidence":"Medium","size":27,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006412","count":4},{"id":"GO:0009409","count":4},{"id":"GO:0019254","count":3},{"id":"GO:0033540","count":3}]},{"hash":"1432023962717200014","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms tied to ribosome biogenesis, ribosomal subunit export from the nucleus, rRNA maturation, and translation, indicating a cohesive group of proteins involved in ribosome assembly and protein synthesis. While a couple of terms touch on transcription or the cell cycle, they are much less represented, supporting a primary function in ribosome-related processes.","confidence":"High","size":27,"edges":251,"triangles":1571,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0007049","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0015986","count":2}]},{"hash":"384708231361214840","title":"Ubiquitin-Dependent Protein Turnover and Circadian Regulation","description":"The top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K48- and K6-linked ubiquitination, autoubiquitination), pointing to ubiquitin-mediated protein turnover as the core function. The presence of circadian rhythm regulation and histone catabolic process supports a link between ubiquitin signaling, circadian control, and chromatin dynamics. A few terms (wybutosine biosynthesis, skeletal muscle differentiation) may reflect broader or context-specific roles of ubiquitination, but the central theme remains ubiquitin-dependent protein turnover and its regulatory context.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0000209","count":11},{"id":"GO:0042752","count":10},{"id":"GO:0085020","count":9},{"id":"GO:0051865","count":9}]},{"hash":"741977492659548260","title":"Translation Initiation and Preinitiation Complex Assembly","description":"The top terms are dominated by translation initiation and reinitiation processes (including viral IRES-dependent initiation and regulation of initiation, plus formation of the translation preinitiation complex), indicating these proteins mainly participate in initiating translation. While terms related to RNA processing and mRNA stabilization appear, the core signal centers on initiation machinery, supporting a cohesive label around translation initiation. ","confidence":"High","size":27,"edges":20,"triangles":1,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0075525","count":8},{"id":"GO:0075522","count":8},{"id":"GO:0006446","count":8},{"id":"GO:0001731","count":8}]},{"hash":"949941160364004026","title":"Cardiac signaling and calcium regulation","description":"The cluster shows strong representation for heart development, regulation of cardiac muscle contraction, and positive regulation of calcium release into the cytosol, indicating a core focus on cardiovascular signaling and calcium handling. Additional terms touch on vasoconstriction, prostaglandin responses, and regulatory processes like GTPase activity, which align with broader signaling regulation contributing to cardiac function. Some visual perception/opsin terms appear but do not overshadow the central cardiac-calcium theme.","confidence":"High","size":27,"edges":161,"triangles":750,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0045907","count":5},{"id":"GO:0055117","count":5}]},{"hash":"110234128473479314","title":"Chromatin regulation and polyamine acetylation","description":"The cluster shows enrichment for heterochromatin formation (rDNA and subtelomeric) and several acetylation-related terms, including N-terminal peptidyl-serine acetylation and spermidine/spermine acetylation, plus polyamine catabolism (putrescine). This points to a shared theme around chromatin regulation via acetylation and polyamine metabolism; the other terms (angiogenesis, defense response) appear more peripheral. ","confidence":"Medium","size":27,"edges":23,"triangles":5,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":11},{"id":"GO:0000183","count":8},{"id":"GO:0050830","count":7},{"id":"GO:0017198","count":7},{"id":"GO:0032918","count":7}]},{"hash":"166455266009188813","title":"Gonadal Steroidogenesis and Development","description":"The top terms show strong enrichment for testosterone biosynthetic and androgen metabolic processes and female gonad development, pointing to gonadal steroid production as the core function. Additional terms involve prostaglandin and vitamin D/ calcitriol metabolism and various developmental processes, which broadens the theme to endocrine signaling and developmental biology but the dominant signal remains steroidogenesis and gonadal development.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":7},{"id":"GO:0008209","count":7},{"id":"GO:0008585","count":6},{"id":"GO:0001516","count":6},{"id":"GO:0019373","count":6}]},{"hash":"1410942113194524960","title":"Ribosome biogenesis and rRNA maturation","description":"The cluster is dominated by GO terms related to ribosome assembly and RNA maturation, including ribosome biogenesis and maturation of SSU/LSU/5.8S rRNA, along with translation and RNA processing. While there are also terms for transcription and DNA replication, the strongest cohesive signal centers on ribosome assembly and rRNA processing, suggesting proteins that coordinate ribosome biogenesis with RNA maturation. This label best captures the core function of many proteins in the cluster.","confidence":"High","size":27,"edges":83,"triangles":88,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0042254","count":4}]},{"hash":"1765738122206939641","title":"Neuronal signaling and membrane excitability","description":"The top terms center on synaptic signaling and membrane potential changes (excitatory postsynaptic potential, membrane depolarization, Na+/K+ transport) and neuron-specific structures (paranodal junction assembly, sensory detection of sound), suggesting a cluster of proteins involved in neuronal communication and excitability. Regulatory signals (Notch, NF-kappaB) and receptor internalization also appear, indicating supporting signaling roles in neurons. Overall, this cluster appears to reflect neuronal signaling and membrane excitability processes.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":7},{"id":"GO:0031623","count":6},{"id":"GO:1901223","count":6},{"id":"GO:0060079","count":6},{"id":"GO:0071805","count":6}]},{"hash":"625332761525277463","title":"Neuronal vesicle trafficking and development","description":"Key terms reflect vesicle trafficking between ER and Golgi (COPII budding, Golgi-ER transport) and neural development signals, including brain/nervous system development and mitotic proliferation.","confidence":"High","size":27,"edges":77,"triangles":34,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0090114","count":7},{"id":"GO:0035264","count":6}]},{"hash":"270109537481941897","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":112,"triangles":272,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0071456","count":4}]},{"hash":"1959685472348189706","title":"Heat Shock Response and Chaperone Activity","description":"These proteins cluster around cellular stress handling: several terms point to response to heat and protein folding/refolding, including chaperone-related processes. The additional kinase-regulation terms suggest accompanying signaling that modulates proteostasis and possibly cell-cycle control during stress. Overall, it likely represents heat-induced proteostasis machinery with stress signaling.","confidence":"High","size":27,"edges":94,"triangles":126,"max_degree":18,"top_function":"protein folding","top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0071902","count":3}]},{"hash":"1189887772474260338","title":"Insect Metabolism and Hormone Biosynthesis","description":"GO terms point to biosynthetic pathways for sterols, ubiquinone, and polyamines, with a notable insect-specific juvenile hormone biosynthetic process, suggesting the cluster reflects insect metabolic and hormonal biosynthesis. Additional terms related to growth and stress responses imply coordination of growth regulation and stress in insect physiology, rather than a single discrete function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0006718","count":3},{"id":"GO:0018364","count":3},{"id":"GO:0016126","count":3}]},{"hash":"678174430990059527","title":"Mitochondrial Metabolism and Transport","description":"Most terms center on transport and metabolic processes tied to mitochondria (NAD, CoA, thiosulfate transport; malate-aspartate shuttle; magnesium export from mitochondrion) and metabolic regulation (insulin response, liver regeneration). While a few terms touch broader contexts (pregnancy, necroptosis), the dominant signal is mitochondrial energy metabolism and substrate transport, supporting a coherent cluster theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":12},{"id":"GO:0015886","count":12},{"id":"GO:0007565","count":12},{"id":"GO:0032869","count":12},{"id":"GO:0035349","count":11}]},{"hash":"1704766721683748349","title":"Neuronal Axon Guidance and Sensory Signaling","description":"This cluster centers on neural development and pathfinding, as evidenced by terms like axon guidance, axon extension, sensory neuron signaling, and sensory perception of sound. While some terms (endocytosis, innate immune response, cell wall organization) are more general or context-specific, the strongest shared theme among the majority of terms is neuronal development and sensory neuron pathways.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0071555","count":2}]},{"hash":"825971540770362364","title":"Glycoprotein glycosylation and ECM-related development","description":"The top terms converge on glycosylation and glycoprotein biosynthesis (arabinogalactan protein metabolic process, poly-N-acetyllactosamine biosynthetic process, O-linked glycosylation) and related extracellular matrix/mucilage formation (AGP metabolism, seed coat mucilage), alongside development-related processes such as root hair formation and epithelial polarity. This points to a common theme of glycosylated cell-surface components and ECM interactions guiding tissue development across organisms. Confidence is Moderate because while glycosylation/ECM terms are strong, some terms pertain to distinct model organisms, making a single, universal function less certain.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0075015","count":7},{"id":"GO:0010493","count":5},{"id":"GO:0007299","count":5},{"id":"GO:0048354","count":5},{"id":"GO:0030311","count":5}]},{"hash":"1217025251426505804","title":"Embryonic development and tissue morphogenesis","description":"This cluster is dominated by GO terms tied to development and morphogenesis across multiple tissues (mesoderm development, cartilage morphogenesis, hair follicle morphogenesis, roof of mouth development, left-right patterning, endocrine system development, and pancreatic cell development), indicating a cohesive theme of embryogenesis and organ formation. The single metabolic term (negative regulation of vitamin D biosynthetic process) is less central but does not disrupt the overall developmental focus. Confidence in this label is High.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010957","count":24},{"id":"GO:0035270","count":24},{"id":"GO:0031069","count":24},{"id":"GO:0003198","count":24},{"id":"GO:0007498","count":24}]},{"hash":"248979260982949509","title":"Vesicle trafficking and exocytosis regulation","description":"The top terms cluster around intracellular transport, regulation of synaptic vesicle exocytosis, endosomal/vesicle formation (multivesicular body), and GTPase activity regulation, all pointing to membrane trafficking pathways central to neurons and other cells. While some terms (brain development, ABA signaling) reflect broader or context-specific roles, the core signals consistently indicate vesicle trafficking and exocytosis regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:2000300","count":5},{"id":"GO:0006886","count":5},{"id":"GO:0045945","count":5},{"id":"GO:0031384","count":5}]},{"hash":"846699411386899057","title":"Immune signaling and cytoskeletal dynamics","description":"The most represented GO terms point to defense responses to Gram-positive bacteria and activation of immune signaling pathways (NF-kappaB and JNK), together with positive regulation of actin nucleation via Arp2/3 and mechanotransduction. This suggests a core theme of immune signaling accompanied by cytoskeletal remodeling, with broader notes on development and cell cycle that may reflect other roles of these proteins. Confidence: Medium.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0043123","count":5},{"id":"GO:0046330","count":5}]},{"hash":"1149829950394782823","title":"Vertebrate Developmental Transcriptional Regulators and Immunity","description":"The cluster is enriched for transcriptional regulation by RNA polymerase II (both positive and negative), and includes clear developmental signals (midbrain and left-right patterning, pituitary development) along with immune-related terms (LPS response, Toll signaling) and ECM remodeling (collagen catabolic process). This suggests a set of transcription regulators coordinating vertebrate development with innate immune signaling. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0030194","count":7},{"id":"GO:0045944","count":7}]},{"hash":"1881252869642578757","title":"RNA processing and translation regulation","description":"The top GO terms cluster around RNA-centric processes: alternative mRNA splicing via spliceosome, small-subunit processome assembly, mRNA stabilization, regulatory ncRNA-mediated gene silencing, and various aspects of translation initiation/termination including IRES-dependent viral translation and translation reinitiation. While a couple terms are peripheral (blastocyst formation, magnesium ion response), the core theme is RNA processing and post-transcriptional regulation of gene expression.","confidence":"Medium","size":27,"edges":19,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":3},{"id":"GO:0032026","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001825","count":2}]},{"hash":"1541382556860422326","title":"Apoptosis and Transcriptional Regulation","description":"The top GO terms emphasize apoptotic processes and transcriptional control (DNA-templated transcription and RNA polymerase II\u2013driven regulation), suggesting a core role in cell fate decisions via gene expression changes. Additional terms like fatty acid biosynthesis and defense responses point to broader stress-related or metabolic contexts, but the recurring theme is regulation of transcription accompanying apoptosis. Confidence: Medium","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0006633","count":5},{"id":"GO:0014068","count":5}]},{"hash":"37251776738483166","title":"Neural development and axon guidance signaling","description":"The top terms are dominated by neural development processes, including optic nerve morphogenesis, corpus callosum development, retinal ganglion cell axon guidance, and ephrin receptor signaling, as well as trans-synaptic signaling. While apoptotic and immune-related terms appear, the prevailing signal points to neural tissue development and axon pathfinding. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":18},{"id":"GO:0097155","count":18},{"id":"GO:0022038","count":18},{"id":"GO:0048320","count":18},{"id":"GO:0050798","count":18}]},{"hash":"749074178795579435","title":"Developmental regulation and differentiation programs","description":"The top GO terms point to developmental processes across multiple tissues (brain, neuron projection, gonads, osteoblasts) and organismal growth, paired with core gene-expression control mechanisms (RNA Pol II transcription regulation, chromatin localization, mRNA splicing, histone modification). This combination suggests a broad developmental regulatory program governing differentiation, hence the chosen label.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1908549989545840383","title":"Mitochondrial membrane permeability and protein import","description":"This cluster is indicated by GO:0046902 (regulation of mitochondrial membrane permeability) and GO:0030150 (protein import into mitochondrial matrix), pointing to a mitochondrial-focused group of proteins. While other terms in the set touch on cell cycle regulation, signaling, and xenobiotic response, the strongest common theme is mitochondrial function, particularly import machinery and membrane regulation, which justifies a mitochondria-centered label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":3},{"id":"GO:0030150","count":3},{"id":"GO:2000134","count":3},{"id":"GO:0070940","count":3},{"id":"GO:1903740","count":3}]},{"hash":"122682940568527725","title":"Neuronal signaling and RNA regulation","description":"The top GO terms cluster around neuronal communication and synaptic function (GPCR and Wnt signaling, calcium import, regulation of synaptic plasticity, dendrite development) together with post-transcriptional control (mRNA processing and stability, SNARE regulation). This suggests a cohesive theme of neuronal signal transduction at synapses coupled with local RNA processing/regulation. Some terms (like telomere-related ones) appear incidental rather than central to the cluster\u2019s main function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0016055","count":5},{"id":"GO:0098703","count":5},{"id":"GO:1900383","count":4},{"id":"GO:0006397","count":4}]},{"hash":"2056030308122883573","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0006612","count":2},{"id":"GO:0009887","count":2},{"id":"GO:0061371","count":2},{"id":"GO:2000104","count":2}]},{"hash":"1501763673704275861","title":"Ion and Xenobiotic Transmembrane Transporters","description":"The cluster is dominated by GO terms for transmembrane transport across diverse substrates: vitamin transmembrane transport, xenobiotic transmembrane transport, and specific ion (potassium, sodium) transmembrane transport, plus xenobiotic and nitrate transport. The inclusion of neurotransmitter loading into synaptic vesicles also points to vesicular transport roles. Together, these terms suggest a cohesive group of membrane transporter proteins handling ions, vitamins, and xenobiotics, rather than a single substrate class.","confidence":"High","size":26,"edges":7,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035461","count":19},{"id":"GO:0006855","count":19},{"id":"GO:0071805","count":16},{"id":"GO:0042908","count":15},{"id":"GO:0042891","count":13}]},{"hash":"2038726893671818668","title":"Neural development signaling and transcription","description":"The terms point to neural development and related signaling pathways (neural plate morphogenesis, semaphorin-plexin signaling, cortical microtubule organization, integrin activation) together with transcriptional regulation, suggesting a cluster of proteins involved in neural development processes and their transcriptional control. The lack of edges indicates the grouping is based on shared functions rather than direct interactions. ","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:0071320","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0001839","count":3}]},{"hash":"2267691014260078274","title":"Neuronal signaling and ion transport","description":"The cluster is dominated by GO terms tied to neuronal communication and ion-channel activity (excitatory postsynaptic potential, GABA signaling, sodium and potassium ion transmembrane transport), with related behavioral and developmental hints (locomotory behavior, conditioned taste aversion, optic nerve morphogenesis) suggesting a cohesive theme of synaptic signaling and ion transport in neurons.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":9},{"id":"GO:0007626","count":9},{"id":"GO:0071805","count":8},{"id":"GO:0001661","count":8},{"id":"GO:0007214","count":8}]},{"hash":"1203783380117562954","title":"Mitochondrial respiration and energy production","description":"The top GO terms are dominated by mitochondrial electron transport, proton motive force-driven ATP synthesis, and related ion transport, pointing to a core theme of mitochondrial energy metabolism. Nuclear processes like DNA-templated transcription and DNA replication appear as peripheral annotations, likely reflecting shared housekeeping functions or annotation noise rather than a cohesive developmental program. Overall, the strongest signal is mitochondrial energy production.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007507","count":2},{"id":"GO:0030901","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0015986","count":2}]},{"hash":"1775330290525466911","title":"Sugar transport and carbohydrate metabolism","description":"Based on the top GO terms, this cluster centers on carbohydrate handling: active transport of glucose/fructose/xylose and related sugars, along with metabolism of sugars and related compounds (lactose biosynthesis, ascorbate metabolism). The repeated emphasis on transport processes and osmotic stress response suggests a cohesive carbohydrate-transport/metabolism module.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042149","count":8},{"id":"GO:0071332","count":8},{"id":"GO:0019852","count":8},{"id":"GO:0043252","count":8},{"id":"GO:0005989","count":8}]},{"hash":"651106141221291046","title":"Unknown","description":"The listed GO terms span widely different processes\u2014from vitamin D response and hypoxia to synaptic plasticity, fertilization, pigmentation, and mitotic cell cycle\u2014without a unifying biological function. Since there isn't a coherent theme linking most proteins in this cluster, a single, informative label cannot be confidently assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033280","count":7},{"id":"GO:0031915","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0070208","count":6},{"id":"GO:0007568","count":5}]},{"hash":"371560520152935974","title":"ECM Adhesion, Migration, and Coagulation","description":"The cluster is enriched for integrin-mediated signaling, cell\u2013cell adhesion, and extracellular matrix remodeling (metallopeptidase activity, hyaluronan metabolism), along with cell migration and components of the immune/vascular axis (complement activation, blood coagulation). These themes together point to extracellular matrix interactions governing adhesion and vascular/immune processes; an apparent chlorophyll biosynthetic term may be an outlier/annotation noise.","confidence":"High","size":26,"edges":85,"triangles":105,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":12},{"id":"GO:0045123","count":11},{"id":"GO:0006956","count":11},{"id":"GO:0007596","count":11},{"id":"GO:0034113","count":11}]},{"hash":"2146260608605236239","title":"Neuronal Synaptic Transmission and Plasticity","description":"The cluster is enriched for neuronal signaling terms, including excitatory postsynaptic potential, regulation of glutamatergic transmission, and regulation of long-term synaptic plasticity, suggesting a core role in synaptic function. Additional terms point to intracellular trafficking (ER-to-Golgi transport) and protein regulation (ubiquitination, NF-kappaB signaling), which can support synaptic maintenance and signaling. Some annotations (xenobiotic response, kidney development) may reflect shared multitasking proteins or annotation overlap, but the dominant theme remains neuronal synaptic function.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0048169","count":2},{"id":"GO:0051966","count":2}]},{"hash":"1155850193938541975","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0043588","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1464785174671524370","title":"Embryonic Development and Morphogenesis","description":"These proteins are strongly associated with developmental processes, including left/right patterning, roof-of-mouth development, hair follicle and cartilage morphogenesis, and EMT in heart development, along with broader endocrine and placental development. While mRNA splicing appears among the terms, the dominant theme is embryonic development and tissue morphogenesis, justifying this label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":25},{"id":"GO:0010957","count":25},{"id":"GO:0060972","count":25},{"id":"GO:0003198","count":25},{"id":"GO:0060021","count":25}]},{"hash":"783362143726848539","title":"Neural and Craniofacial Development","description":"The top GO terms cluster around neural and craniofacial tissue formation: brain development, globus pallidus development, trigeminal ganglion development, cochlea morphogenesis, and roof of the mouth development. This suggests the proteins participate in neural and sensory/craniofacial organ development, with some outliers like liver development and cold response that are less central. Overall, a cohesive theme of neural and craniofacial development emerges.","confidence":"Medium","size":26,"edges":37,"triangles":1,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0007275","count":10},{"id":"GO:0007420","count":10},{"id":"GO:0021759","count":10},{"id":"GO:0001889","count":10}]},{"hash":"2137966530426929434","title":"Vertebrate embryonic transcriptional regulation and organogenesis","description":"This cluster combines strong signals for transcriptional control (negative regulation of transcription by RNA Pol II; DNA-templated transcription; transcription by RNA Pol II) with diverse developmental processes (embryonic eye/retina morphogenesis, habenula development, in utero embryonic development, cardiac muscle proliferation). The genes likely participate in regulating gene expression during embryogenesis across organs, especially the eye/retina and heart, making this a coherent developmental/transcriptional theme.","confidence":"High","size":26,"edges":43,"triangles":7,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0048048","count":8},{"id":"GO:0021986","count":7},{"id":"GO:2000288","count":7},{"id":"GO:0060041","count":6}]},{"hash":"1180290230246217576","title":"Neuronal development and axon guidance with vesicle trafficking","description":"The top GO terms center on brain development, axon guidance, regulation of synaptic vesicle exocytosis, and endosomal transport, plus autophagy-related localization to phagophore assembly sites and neuron survival. This pattern points to neuronal differentiation and the coordinating trafficking of vesicles and endosomes essential for neuron function, even though a couple terms are from non-neuronal contexts. Overall, the cluster seems focused on neuronal development and vesicle/endosome dynamics.","confidence":"Medium","size":26,"edges":126,"triangles":129,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":9},{"id":"GO:2000300","count":8},{"id":"GO:0031384","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0045022","count":7}]},{"hash":"864402558801328999","title":"Secretory trafficking and epithelial differentiation","description":"This cluster's top GO terms center on ER-to-Golgi vesicle transport and secretory processes, plus epithelial/gland development (notably prostate glandular acinus differentiation). Additional terms point to GTPase signaling and phosphatase activity, consistent with regulation of vesicle trafficking and cell proliferation. Some terms like single fertilization and aging appear as outliers, but the dominant themes suggest proteins involved in secretion and epithelial differentiation rather than a single coherent pathway. Confidence reflects partial coherence of the annotations: Medium.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0007568","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0031915","count":6},{"id":"GO:0043547","count":5}]},{"hash":"850270739758175945","title":"Rho-regulated cytoskeletal remodeling and junction signaling","description":"These proteins show a common theme of assembling and rearranging actin-based structures (filopodia, microspikes, stress fibers) and organizing cell-cell junctions (adherens junctions), together with signaling pathways (Rho, ephrin) and synaptic structural plasticity. While mitotic spindle assembly appears, the dominant pattern is cytoskeletal dynamics linked to cell junctions and signaling in development and communication. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0051496","count":4}]},{"hash":"1228344441154814543","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000480","count":7},{"id":"GO:0000472","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0000447","count":5}]},{"hash":"21442330476652063","title":"Embryonic Patterning and Morphogenesis","description":"The top GO terms cluster around developmental patterning and morphogenesis across multiple tissues (left/right pattern formation; heart cushion formation; placental/trophoblast differentiation; endocrine development; cartilage and hair follicle morphogenesis; palate development). This suggests the proteins are collectively involved in broad embryonic development and organ formation rather than a single tissue-specific process.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060707","count":14},{"id":"GO:0035270","count":14},{"id":"GO:0060536","count":14}]},{"hash":"1762982077822939799","title":"Growth-Development Signaling","description":"This cluster centers on growth-related signaling and developmental processes, with GO terms for growth hormone receptor signaling and regulation of cell growth, as well as forebrain development, cardiac morphogenesis, and single fertilization. RNA processing and telomere regulation terms appear as supplementary layers, suggesting these proteins broadly participate in development and growth control with ancillary roles in gene expression maintenance.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060396","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0001845","count":4}]},{"hash":"1071523261110259562","title":"Microglial innate immune signaling","description":"This cluster is dominated by innate immune pathways: I-kappaB phosphorylation (NF-kB), TLR2 signaling, NLRP3 inflammasome regulation, defense against viruses, and macrophage activation. These themes point to brain-resident immune cells (microglia) engaging in inflammatory signaling and antiviral responses. Some neuronal migration/axon guidance terms may reflect microglial involvement in brain development and remodeling, but the core signal is innate immune activation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007252","count":4},{"id":"GO:0071260","count":4},{"id":"GO:1900227","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0042116","count":3}]},{"hash":"819732668452547451","title":"Translation initiation and ribosome biogenesis","description":"The top GO terms center on formation of the translation preinitiation complex, translation reinitiation, viral IRES-dependent initiation, and small-subunit processome assembly, pointing to a shared focus on translation initiation and ribosome biogenesis, with some RNA processing terms present as secondary themes.","confidence":"High","size":25,"edges":19,"triangles":20,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:1901407","count":8},{"id":"GO:0000380","count":8},{"id":"GO:0001825","count":8}]},{"hash":"367673907337882587","title":"Ribosome Biogenesis and rRNA Processing","description":"The dominant GO terms point to maturation of 5.8S and LSU rRNA and ribosomal large subunit biogenesis, indicating a cluster focused on ribosome assembly and rRNA processing. Other terms such as transcription and cell cycle are general cellular processes that appear as ancillary annotations but do not define the core function of the cluster. Therefore, this cluster is best described as ribosome biogenesis and rRNA processing.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070208","count":7},{"id":"GO:0000466","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0060041","count":6}]},{"hash":"766176971334370419","title":"Developmental patterning and organogenesis","description":"This cluster is dominated by GO terms tied to embryonic development, tissue differentiation, and patterning (e.g., endocardial cushion EMT, left-right patterning, pancreatic cell development, trophoblast differentiation, cartilage morphogenesis, and endocrine system development). While a couple terms reflect general cellular processes like spliceosome-mediated splicing and ribosomal export, the overarching signal points to developmental differentiation and organogenesis. ","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0003198","count":14},{"id":"GO:0003323","count":14},{"id":"GO:0000398","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060707","count":13}]},{"hash":"2183475409931307586","title":"cGMP and GPCR Signaling","description":"This cluster is dominated by GO terms related to cyclic GMP biosynthesis and GPCR-mediated signaling (receptor guanylyl cyclase signaling, adenosine and adrenergic GPCR pathways, and cGMP production). The presence of blue light signaling supports a photoreceptor\u2013cGMP connection, while transcription regulation appears as a broader, downstream association rather than a core motif. Overall, the proteins seem to cluster around cGMP-associated and GPCR-driven signaling pathways, with some transcriptional regulation context.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":9},{"id":"GO:0007168","count":7},{"id":"GO:0001973","count":7},{"id":"GO:0071880","count":7},{"id":"GO:0030828","count":7}]},{"hash":"1152650030586949435","title":"RNA processing and translation initiation","description":"The cluster is dominated by terms tied to translation initiation (translation reinitiation; preinitiation complex formation) and multiple aspects of RNA processing (spliceosome-mediated splicing, regulatory ncRNA-mediated gene silencing, mRNA stabilization, and alternative splicing), suggesting a cohesive module governing mRNA maturation and translation readiness.","confidence":"High","size":25,"edges":28,"triangles":7,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":13},{"id":"GO:0001731","count":13},{"id":"GO:1901407","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11}]},{"hash":"1275117521609561437","title":"Brain and sensory organ development","description":"The cluster is dominated by GO terms related to brain and sensory organ development: brain development, midbrain development, inner ear development, sensory perception of sound, locomotory behavior, and neuronal stem cell maintenance. While cartilage development and transcriptional regulation appear, the strongest signal points to neural/sensory system formation, suggesting proteins involved in neural development and sensory function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007626","count":7},{"id":"GO:0051216","count":6},{"id":"GO:1903142","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0048839","count":5}]},{"hash":"1845821015512864810","title":"Golgi- and Rab-mediated vesicle trafficking","description":"Top GO terms cluster around Golgi organization, protein retention in the Golgi, and Rab/Rap signaling, with supporting terms for membrane tubulation and lysosome localization, implying a cohesive role in vesicle trafficking and organelle maintenance. Some DNA replication terms appear as outliers, but the dominant signal is Golgi- and Rab/Rap\u2013regulated trafficking. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006278","count":4},{"id":"GO:0032418","count":3},{"id":"GO:1903527","count":2},{"id":"GO:0035023","count":2}]},{"hash":"2024293644515271766","title":"mRNA Translation Initiation and Stability","description":"Most of the top GO terms cluster around translation initiation and its regulation (translation reinitiation, IRES-dependent initiation, formation of the preinitiation complex, and regulation of translational initiation) along with mRNA stability/processing under stress. A few terms like alternative splicing are related to RNA processing, but the dominant signal is initiation of translation and mRNA stability control, justifying this name.","confidence":"High","size":25,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0075525","count":7},{"id":"GO:0075522","count":7},{"id":"GO:0010610","count":7},{"id":"GO:0006446","count":7}]},{"hash":"689734958678283469","title":"Embryonic axis formation and mesoderm development","description":"Most terms center on early embryogenesis and mesoderm/heart development\u2014dorsal/ventral axis specification, mesoderm formation, and EMT in endocardial cushion formation, with craniofacial morphogenesis (roof of mouth) and cell adhesion (integrin activation). The DNA replication/repair terms likely reflect background cellular maintenance rather than a core developmental function. Overall, the cluster appears to represent embryonic development programs, especially mesoderm/heart formation.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0009411","count":1}]},{"hash":"365501731935830952","title":"Cytoplasmic Translation Initiation","description":"The cluster shows a strong emphasis on cytoplasmic translation initiation and initiation complex assembly (e.g., formation of cytoplasmic translation initiation complex, cytoplasmic translational initiation, and regulation of eIF4F complex assembly), suggesting a shared function in initiating and regulating protein synthesis. A few developmental GO terms appear, but they are outnumbered by initiation-related terms, supporting a core translational control theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0001732","count":1},{"id":"GO:0014003","count":1},{"id":"GO:1905537","count":1}]},{"hash":"344190781735030213","title":"Autonomic cardiovascular signaling","description":"Dominant terms center on heart rate regulation, vasoconstriction, and systemic blood pressure control via renin-angiotensin signaling, as well as dopamine receptor signaling through GPCR pathways. These together reflect neural and hormonal regulation of cardiovascular function. Some terms also touch on broader physiological processes (glomerular filtration, heat generation, photoreception), but the core theme remains cardiovascular\u2013neuroendocrine signaling. Therefore, the cluster is best described as Autonomic cardiovascular signaling.","confidence":"Medium","size":25,"edges":139,"triangles":371,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":25},{"id":"GO:0003093","count":24},{"id":"GO:0045907","count":24},{"id":"GO:0031649","count":24},{"id":"GO:0016038","count":24}]},{"hash":"22663559431082799","title":"Embryonic mesoderm development and organogenesis","description":"This cluster is dominated by GO terms tied to early development, especially mesoderm formation and subsequent organogenesis, including heart-related EMT (endocardial cushion formation), palate development, placental/trophoblast differentiation, and endocrine system development. These themes cohere around embryonic tissue specification and organ formation, with additional regulatory terms reflecting developmental gene control. Therefore, the label encapsulates the prevalent function of the proteins. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":25},{"id":"GO:1903026","count":25},{"id":"GO:0060021","count":25},{"id":"GO:0010957","count":25},{"id":"GO:0003198","count":25}]},{"hash":"433945926036911289","title":"Gametogenesis and meiotic chromatin regulation","description":"This cluster\u2019s top GO terms center on germ cell formation and meiosis, including oogenesis, spermatogenesis, fertilization, DNA recombination, and chromatin-related processes (protein localization to chromatin, chromosome condensation, epigenetic marks). Together they point to proteins involved in germline development and meiotic chromatin remodeling, justifying a label focused on gametogenesis and meiotic regulation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0045842","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0007076","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006511","count":3}]},{"hash":"2241292121026353234","title":"Unknown","description":"Top terms span apoptosis, RNA transport and translation regulation, nuclear pore localization, microtubule dynamics, spermatid differentiation, protein ADP-ribosylation, hypoxia response, and sensory perception of sound. This diversity provides no single cohesive theme to define a specific functional cluster, so a precise label is not supported.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051402","count":3},{"id":"GO:0031115","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0006406","count":2}]},{"hash":"279973075165020962","title":"Proteoglycan and GAG biosynthesis","description":"The cluster shows a strong enrichment for proteoglycan/glycosaminoglycan biosynthetic processes (keratan sulfate, heparan sulfate, and chondroitin sulfate), pointing to extracellular matrix production. While other terms touch metabolism or development, the proteoglycan/GAG biosynthesis signal is dominant, supporting a proteoglycan/ECM-focused cluster theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":2},{"id":"GO:0045600","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0015015","count":2},{"id":"GO:0030206","count":2}]},{"hash":"1426495871584706360","title":"Growth and proliferation control","description":"The top terms cluster around cell growth, proliferation, and division (cell population proliferation, positive regulation of proliferation, mitotic cell cycle, cell division), with associated translation machinery and growth signaling (TORC1 signaling, translation preinitiation and reinitiation). Calcium release also ties into signaling that can influence proliferation. A retina development term appears but likely reflects tissue-specific context or annotation noise; overall the cluster represents growth/proliferation and translation control rather than a single specialized pathway. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0008284","count":5},{"id":"GO:0051209","count":5}]},{"hash":"1175697547093394057","title":"Macrophage innate immune signaling and inflammasome regulation","description":"The top GO terms cluster around macrophage-driven innate immunity, including defense against virus, TLR2 signaling, regulation of NLRP3 inflammasome assembly, and modulation of signaling pathways (JAK-STAT, CAMKK-AMPK). Together they suggest a cohesive theme of macrophage activation and controlled inflammatory signaling; a few non-immune terms appear, but do not change the core grouping. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1900227","count":9},{"id":"GO:0051607","count":9},{"id":"GO:0042116","count":9},{"id":"GO:1905289","count":9},{"id":"GO:0034134","count":9}]},{"hash":"1359269878720522298","title":"Immune Signaling and Cytoskeletal Remodeling","description":"The dominant GO terms point to lymphocyte signaling (B cell receptor signaling, NK cell cytotoxicity regulation) and cytoskeletal dynamics (lamellipodium assembly, regulation of Rho signaling), suggesting a cluster of proteins involved in immune cell activation/motility and actin remodeling. DNA recombination/integration hints at lymphocyte gene rearrangement, which can be tied to immune function, while a few terms (e.g., proteoglycan biosynthesis) appear less connected. Overall, a coherent theme centers on immune signaling coupled with cytoskeletal changes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0045954","count":3},{"id":"GO:0050853","count":3}]},{"hash":"744910604106435841","title":"Embryonic Development and Patterning","description":"The GO terms show multiple developmental processes such as endocrine system development, placental and trophoblast differentiation, left-right pattern formation, and endocardial cushion EMT, indicating a cluster tied to embryonic organogenesis and tissue differentiation. Additional terms about RNA polymerase II regulation and mRNA splicing reflect gene-expression control essential for developmental programs, supporting a cohesive theme of developmental regulation and organogenesis.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1052992396428818219","title":"Immune cell differentiation and cytokine signaling","description":"Despite some outliers, the cluster is dominated by GO terms tied to lymphocyte development and cytokine signaling, including NK T cell differentiation, B cell affinity maturation, interleukin-7 response, interleukin-4 production, and GTPase-regulated signaling. These recur across the terms, suggesting a cohesive theme around immune cell development and cytokine-mediated signaling, with a few unrelated terms contributing noise. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0015706","count":3},{"id":"GO:0001954","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0001865","count":3}]},{"hash":"285169397222922294","title":"Neural development and synapse assembly","description":"The cluster includes GO terms tied to neuronal development and synaptic organization (synapse assembly; sympathetic nervous system development) and signaling processes (regulation of GTPase activity; cellular response to growth factor), suggesting a core theme around neural signaling and synaptic formation. While there are other terms in the mix (egg activation, sterol biosynthesis, centrosome cycle), the strongest and most representative signals relate to neural development and synaptic assembly.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":3},{"id":"GO:0071364","count":2},{"id":"GO:0007416","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0016126","count":2}]},{"hash":"756149570219680153","title":"Polyamine acetylation and catabolism","description":"The top GO terms cluster around acetylation and breakdown of polyamines (spermidine, spermine, putrescine) and related metabolic steps (e.g., N-acetylglucosamine metabolism). Sporulation and subtelomeric heterochromatin formation appear as minor or historical annotations, but the core signal is polyamine modification and catabolic processes, suggesting proteins in this cluster participate in polyamine metabolism and regulation.","confidence":"Medium","size":24,"edges":154,"triangles":673,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":7},{"id":"GO:0006348","count":7},{"id":"GO:0017198","count":6},{"id":"GO:0032918","count":6},{"id":"GO:0006044","count":6}]},{"hash":"2128502904956511129","title":"Dopaminergic Neurodevelopment and Calcium Signaling","description":"This cluster is dominated by neural development terms, including neuron differentiation and substantia nigra development, along with calcium-related signaling and neural stimuli responses (e.g., response to calcium ion, response to cocaine). These indicate a core theme around neural differentiation and calcium-mediated signaling, particularly in dopaminergic pathways. Some non-neural terms (cell cycle, telomere maintenance, T cell homeostasis) appear but are likely broader cellular context signals rather than defining the cluster\u2019s main function. Overall, the neural development plus calcium signaling theme best describes the set.","confidence":"Medium","size":24,"edges":82,"triangles":162,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0007049","count":8},{"id":"GO:0042220","count":7},{"id":"GO:0030182","count":7},{"id":"GO:1903244","count":6}]},{"hash":"2006480380875672542","title":"Cerebellar and auditory development","description":"Many top GO terms point to neural development and sensory systems, notably brain development, inner ear development, sensory perception of sound, and Purkinje cell development, with additional signals for synapse assembly and locomotory behavior. These collectively suggest a cluster devoted to cerebellar and auditory system formation and function, with some non-neural annotations likely representing noise. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":6},{"id":"GO:1903142","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0007420","count":5}]},{"hash":"185653898576265127","title":"Craniofacial and Mesodermal Morphogenesis","description":"This cluster is dominated by GO terms tied to vertebrate development of mesoderm-derived tissues and craniofacial structures, including mesoderm development, cartilage morphogenesis, roof of mouth development, and hair follicle morphogenesis, as well as EMT involvement in heart development. While some terms point to RNA processing and transcription regulation, the overarching theme appears to be tissue morphogenesis in craniofacial and mesodermal contexts, suggesting a coherent developmental program. ","confidence":"Medium","size":24,"edges":165,"triangles":605,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0010957","count":6},{"id":"GO:1903026","count":6},{"id":"GO:0035270","count":6}]},{"hash":"1851793779878818487","title":"Ribosome biogenesis and translation","description":"The proteins cluster around core RNA processing and ribosome-related functions, with strong enrichment for translation (GO:0006412), ribosome biogenesis (GO:0042254), and rRNA maturation steps, plus formation of the translation preinitiation complex. While there are some RNA-processing terms (splicing, ncRNA-mediated regulation), the dominant theme ties to ribosome assembly and protein synthesis, supporting a label focused on ribosome biogenesis and translation.","confidence":"High","size":24,"edges":47,"triangles":53,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0031047","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0000466","count":3}]},{"hash":"781513120011054571","title":"Neural development and fate specification","description":"This cluster centers on transcriptional regulation with multiple neural development terms (interneuron, motor neuron, oligodendrocyte differentiation; floor plate and subpallium fate commitment; amacrine differentiation), indicating proteins that drive CNS patterning and neuron/glial cell fate decisions through transcription. The common theme is transcription-controlled neural development and cell fate specification.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0006351","count":9},{"id":"GO:0021892","count":7},{"id":"GO:0021530","count":7},{"id":"GO:0021520","count":7}]},{"hash":"1331606505660322337","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":75,"triangles":52,"max_degree":15,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006281","count":4},{"id":"GO:0000289","count":3},{"id":"GO:0002107","count":3},{"id":"GO:0010606","count":3}]},{"hash":"1663594213897952000","title":"ABA-stress signaling and phosphoinositide metabolism","description":"The cluster centers on the abscisic acid-activated signaling pathway and osmotic/salt stress responses, with supporting lipid signaling via phosphatidylinositol/inositol biosynthesis. Nitric oxide signaling and processes like mRNA processing and ubiquitination suggest broader stress-adaptive functions rather than a single enzymatic activity, consistent with a plant stress signaling module that integrates ABA and phosphoinositide pathways.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009738","count":4},{"id":"GO:0071732","count":3},{"id":"GO:0006397","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0016567","count":3}]},{"hash":"304797251720519245","title":"Lectin-based innate immune activation","description":"The strongest shared signal among the top terms is lectin-mediated immunity: complement activation via the lectin pathway and stimulatory C-type lectin receptor signaling. Additional terms like plasminogen activation and proteolysis fit with extracellular remodeling linked to immune responses. Some developmental and transcription terms are present but appear less connected to the core theme, so the label reflects the primary function while acknowledging heterogeneity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0072218","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0031639","count":3}]},{"hash":"1596412956429619648","title":"Cardiac and Muscle Development Signaling","description":"These proteins are enriched for heart development, myoblast differentiation, cell adhesion, and ERK signaling, pointing to cardiac and skeletal muscle development and maturation. The inclusion of voltage-gated sodium channel clustering aligns with the physiology of excitable muscle tissue, including heart conduction. Some immune-related terms appear, suggesting shared signaling pathways, but the dominant theme is developmental signaling in cardiac and muscle biology.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007155","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0045162","count":3},{"id":"GO:0007626","count":3}]},{"hash":"25007269244330100","title":"RNA Pol II Transcription Regulation","description":"The proteins are dominated by GO terms related to transcriptional control and DNA binding by RNA polymerase II (e.g., negative regulation of transcription by RNA Pol II, DNA-templated transcription, and regulation of DNA binding). While there are additional terms like oxidative stress response, protein repair, extracellular matrix organization, and viral processes, the core signal is transcriptional regulation and DNA binding. This makes \"RNA Pol II Transcription Regulation\" the most representative and specific label for the cluster.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0030091","count":2},{"id":"GO:1903026","count":2}]},{"hash":"382686474232115699","title":"LPS-triggered inflammation and vascular signaling","description":"The cluster\u2019s top GO terms converge on innate immune responses to bacteria (response to lipopolysaccharide, defense against bacterium, inflammatory response) and vascular/modulatory signaling (vasoconstriction, smooth muscle contraction, ERK cascade), suggesting a coordinated bacterial\u2011component\u2013driven inflammatory response with accompanying vascular regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045907","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0007626","count":3},{"id":"GO:0045986","count":3}]},{"hash":"746415195866052942","title":"Developmental gene regulation","description":"The top GO terms cluster around developmental processes (male sex differentiation, prostate gland development, epithelial-to-mesenchymal transition in heart development) and transcriptional control (steroid hormone receptor complex assembly; negative regulation of RNA polymerase II regulatory region DNA binding), suggesting a shared theme of regulating gene expression during development. Other terms like actin filament polymerization and innate immune response appear more peripheral, indicating some functional diversity within the cluster but a core emphasis on developmental regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0030850","count":2}]},{"hash":"1991872573640174409","title":"Endosomal MVB trafficking and ubiquitin-mediated degradation","description":"Top GO terms point to intralumenal vesicle formation and ubiquitin-dependent/independent proteolysis via the multivesicular body sorting pathway, plus related vacuolar transport and ATP export. These collectively indicate endosomal trafficking and protein turnover through the MVB pathway, with additional signals for cilium/dendrite contexts that may reflect specialized cellular trafficking roles. Confidence: High","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0051301","count":2},{"id":"GO:1905515","count":2},{"id":"GO:0016358","count":2},{"id":"GO:0070676","count":2}]},{"hash":"1822029527421196930","title":"Embryonic development and tissue differentiation","description":"These terms cluster around differentiation and morphogenesis across diverse lineages (skeletal muscle, heart cushion EMT, pancreatic cell development, trophoblasts, cartilage formation, left-right patterning, endocrine/placental development). This suggests the proteins are enriched for regulators of developmental differentiation rather than a single tissue type or pathway. Therefore a label like Embryonic development and tissue differentiation appropriately captures the shared function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0035270","count":2}]},{"hash":"387315325846473217","title":"Unknown","description":"The GO terms are highly diverse (kidney development, lipid digestion, cAMP response, toxic substance response, wing patterning, heart EMT, protein oligomerization, inflammatory regulation, and cardiac conduction) with no clear shared function. With no edges and only a few redundant additions, there isn\u2019t a cohesive theme to label a specific biological function.  ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0072205","count":3},{"id":"GO:0044241","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0009636","count":2}]},{"hash":"22848238521447635","title":"Stress-Responsive Apoptosis Regulation","description":"The GO terms show oxidative stress response, hypoxia, and ER stress, along with both intrinsic and extrinsic apoptotic signaling, plus development terms like retina and male gonad. This pattern suggests the cluster centers on regulating apoptosis in response to cellular stress across contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042542","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0010523","count":2}]},{"hash":"2058674601162924834","title":"Neuronal signaling and development","description":"The cluster shows strong neural-related GO terms: potassium ion transmembrane transport, excitatory postsynaptic potential, optic nerve morphogenesis, and responses to cocaine and ethanol, suggesting roles in neural signaling and development. While there are general transcription and replication terms, the neural-focused terms provide a coherent theme around neuronal function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0046827","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0071361","count":6}]},{"hash":"166822223775363615","title":"Cell growth and differentiation regulators","description":"Based on GO terms including cell migration, fat cell differentiation, regulation of proliferation, Wnt signaling modulation, and supportive processes like mRNA processing and DNA replication, this cluster appears to comprise proteins that coordinate cell fate decisions and proliferative signaling during differentiation, rather than a single isolated pathway.","confidence":"High","size":23,"edges":10,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:0043065","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0045444","count":4},{"id":"GO:1904355","count":4}]},{"hash":"341339790368729377","title":"Neurodevelopment and Organogenesis Signaling","description":"This cluster includes proteins tied to nervous system development and organ formation, with GO terms spanning neural development, heart and kidney development, and salivary gland boundary specification, plus key signaling pathways (ROBO, Hedgehog/Smoothened, BMP). The presence of axon paranode/juxtaparanode localization terms alongside organ development terms points to a cohesive theme of developmental signaling coordinating neural and organ morphogenesis.","confidence":"Medium","size":23,"edges":185,"triangles":680,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0007224","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0007507","count":5}]},{"hash":"312219194547069731","title":"Unknown","description":"The top terms span neural signaling, nervous system development, addiction-related responses, cell-cycle and kinetochore biology, immune regulation, and cardiac stress responses, with no single cohesive theme tying all proteins together.","confidence":"","size":23,"edges":123,"triangles":362,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":9},{"id":"GO:0014044","count":9},{"id":"GO:0043278","count":9},{"id":"GO:0042220","count":9},{"id":"GO:0051321","count":8}]},{"hash":"1034861052184847966","title":"DNA Repair and Oxidative Stress Response","description":"This cluster centers on genome maintenance: DNA replication, nucleotide-excision repair, DNA recombination, and UV protection, coupled with redox homeostasis and oxidant detoxification. The presence of transcriptional regulation by RNA polymerase II and mRNA decay may reflect co-regulated stress responses, but the dominant theme is DNA damage repair and oxidative stress defense, indicating a genome stability module.","confidence":"High","size":23,"edges":18,"triangles":12,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0009650","count":4},{"id":"GO:0006289","count":4},{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4}]},{"hash":"2029332298149241303","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0006203","count":2},{"id":"GO:0001680","count":2},{"id":"GO:0042245","count":2},{"id":"GO:0006402","count":2}]},{"hash":"345893155395766672","title":"Rho/Rac GTPase Signaling and Actin Dynamics","description":"The cluster is dominated by GO terms for Rho and Rac GTPase signaling, regulation of GTPase activity, and regulation of actin cytoskeleton reorganization, indicating a cohesive module centered on cytoskeletal remodeling via small GTPases. Additional terms about growth factor signaling and neuronal contexts (hippocampus development, sensory perception) fit with signaling environments where actin dynamics are critical, while apoptosis aligns downstream effects. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0016601","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1593716588832560918","title":"Neural and inner ear development with synapse assembly","description":"The cluster is enriched for neuronal adhesion (heterophilic/homophilic, neuron-specific), nervous system development, inner ear development, auditory sensing, and synapse assembly, suggesting a cohesive role in neural differentiation, synapse formation, and inner ear function (e.g., Purkinje neuron contexts and planar polarity-related microtubule organization).","confidence":"High","size":23,"edges":16,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007158","count":11},{"id":"GO:0007156","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0043931","count":11}]},{"hash":"428224491445214776","title":"Angiogenesis with Endothelial Migration and Inflammation","description":"The cluster centers on sprouting angiogenesis and endothelial dynamics (proliferation, migration, integrin signaling) and includes inflammatory/immune processes (innate immune response, acute inflammatory response) plus related remodeling events ( EMT/EndoMT, clearance), pointing to a coordinated vascular remodeling program tied to inflammation.","confidence":"High","size":23,"edges":19,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0002040","count":10},{"id":"GO:2001046","count":9},{"id":"GO:0021510","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0010886","count":9}]},{"hash":"1125419236392445444","title":"Golgi-ER vesicle trafficking","description":"The top GO terms cluster around vesicle movement and fusion tied to the Golgi and ER, including ER-to-Golgi transport, intra-Golgi transport, Golgi ribbon formation, and endosome-to-Golgi retrograde trafficking, suggesting a cohesive role in Golgi-ER vesicle trafficking; a few terms related to insulin/fatty acid response or mitochondrial apoptosis may reflect broader regulatory or stress signaling rather than a separate pathway.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":3},{"id":"GO:0070542","count":2},{"id":"GO:0008637","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0090161","count":2}]},{"hash":"882262498591937575","title":"Unknown","description":"The top GO terms span plant-specific processes (chlorophyll biosynthetic process; stamen formation) and immune/extracellular remodeling activities (proteasome assembly; ubiquitin-dependent protein catabolic process; cell migration and extravasation; complement activation; blood coagulation; heterotypic cell-cell adhesion; metallopeptidase regulation). Because the terms form a heterogeneous mix with no clear, shared function across the proteins, there is no confidently representative label to assign.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":11},{"id":"GO:0006929","count":11},{"id":"GO:0048455","count":11},{"id":"GO:0043248","count":11},{"id":"GO:0006511","count":11}]},{"hash":"2296154914584006219","title":"Embryonic development and organ morphogenesis","description":"This cluster centers on embryonic development, differentiation, and morphogenesis across multiple tissues (heart via EMT, placenta, cartilage, pancreas) and axes (left\u2013right patterning), with accompanying transcriptional regulation and chromatin remodeling, indicating a cohesive developmental gene-regulatory program.","confidence":"High","size":23,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1182559132665956816","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning immune system processes (B cell homeostasis, B cell proliferation, LPS response, NF-kappaB regulation), hematopoietic/platelet formation, and neural/mechanosensory functions (long-term synaptic depression, vocalization behavior, cellular response to mechanical stimulus, thymic T cell selection). With no cohesive, single biological theme tying these proteins together, there isn\u2019t a clear, interpretable functional label beyond Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0001922","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0051092","count":2}]},{"hash":"164206259521827024","title":"Nervous system and heart development","description":"Based on the top GO terms, the proteins are enriched for developmental processes of the nervous system (nervous system development, hippocampus development, brain-related terms) and heart development, with additional signals related to mechanotransduction and stress signaling (cellular response to mechanical stimulus; positive regulation of JNK cascade; NF-kappaB pathway). This points to a cohesive theme around coordinated development of neural and cardiac tissues, with regulatory signaling roles. ","confidence":"Medium","size":23,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0046330","count":4}]},{"hash":"1140370753290495470","title":"Ubiquitin-Proteasome Regulation and NF-kappaB Signaling","description":"The cluster is enriched for ubiquitin-dependent protein catabolic processes, including autoubiquitination and ERAD-related activity, along with annotations linked to activation of NF-kappaB-inducing kinase. This pattern suggests a cohesive function in tagging and regulating proteins for degradation and modulating NF-\u03baB signaling pathways, despite some obsolete GO terms in the set.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":9},{"id":"GO:2000620","count":7},{"id":"GO:0090073","count":7}]},{"hash":"1650328145505011410","title":"MAPK signaling and neural crest migration","description":"The top GO terms point strongly to MAPK/ERK pathway regulation (positive regulation of ERK1/ERK2 cascade; activation of MAPK activity), with additional neural development context (ventral trunk neural crest cell migration; sympathetic neuron projection extension). Endocytosis and ubiquitination terms suggest regulation of receptor signaling and protein turnover that can modulate MAPK signaling, fitting a theme of signaling control during neural crest\u2013derived development and neuron formation. Confidence reflects a coherent, specific theme across multiple related functions.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0000187","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0097011","count":3}]},{"hash":"2174164963565643613","title":"Embryonic Development & Organogenesis","description":"The proteins in this cluster are annotated with a broad set of developmental GO terms spanning prenatal tissue formation (pancreatic development, placental development, left-right patterning, endocrine system development, cartilage morphogenesis, hair follicle morphogenesis, roof of mouth development, trophoblast differentiation) and heart-related EMT events, indicating a common theme of embryonic development and organogenesis rather than a single pathway. A secondary, but supportive, term on splicing suggests general gene-expression regulation during development. Confidence: High","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":9},{"id":"GO:0060806","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060536","count":9}]},{"hash":"1977663952315004583","title":"Unknown","description":"The top GO terms span neural signaling (glycinergic synaptic transmission; innervation), RNA biology (mRNA splicing via spliceosome; ribosomal large subunit export from nucleus) and diverse developmental processes (left-right pattern formation; roof of mouth development; epithelial-to-mesenchymal transition in endocardial cushion formation). This mixture lacks a single cohesive theme or pathway that unites the cluster's proteins, so a concise, interpretable label is not evident. Consequently, the cluster is best described as Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060012","count":2},{"id":"GO:0060384","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0010957","count":2}]},{"hash":"225207201193703686","title":"Embryonic Development and Morphogenesis","description":"These GO terms cluster around embryonic development and tissue morphogenesis across multiple lineages: mesoderm formation, cartilage and palate morphogenesis, hair follicle and pancreatic development, and EMT in heart development. The inclusion of mRNA splicing is a general cellular process and does not disrupt the overall developmental theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":22},{"id":"GO:0010957","count":22},{"id":"GO:0035270","count":22},{"id":"GO:0031069","count":22},{"id":"GO:0003198","count":22}]},{"hash":"2197107675651253032","title":"Unknown","description":"The top terms span necroptosis (ripoptosome), several developmental processes (hair follicle morphogenesis, endocardial cushion EMT, multicellular organism development), Notch signaling regulation, neuron axonogenesis, lysosome organization and secretion, a metabolic process (L-threonine biosynthesis), and phosphorylation. This mix reflects diverse biological themes with no single cohesive function dominating the cluster, so a concise, representative label cannot be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901026","count":3},{"id":"GO:0031069","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0045747","count":2},{"id":"GO:0048936","count":2}]},{"hash":"1702129789430698386","title":"Ribosome Biogenesis and Mitotic Cell Cycle","description":"The top terms strongly point to ribosome assembly and rRNA maturation (e.g., maturation of LSU-rRNA and maturation of 5.8S rRNA, ribosomal large subunit biogenesis) as well as mitotic processes (mitotic cell cycle, cell division, APC-dependent catabolic process). This suggests the proteins function in coordinating ribosome production with cell cycle progression; a few outlier terms (neural tube closure, cadmium response) may reflect annotation noise rather than core function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0031145","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0000278","count":4}]},{"hash":"52687150159849763","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around various developmental processes: pancreatic cell development, endocrine system development, left-right pattern formation, cartilage morphogenesis, placental/trophoblast differentiation, endocardial cushion EMT, and broader embryonic organogenesis. Although immune-defense terms appear, the dominant theme is developmental differentiation and tissue morphogenesis across multiple organs, suggesting proteins involved in embryonic development programs.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1850065872553178623","title":"Unknown","description":"The top GO terms cover neural signaling (pain perception, morphine response, synaptic transmission) and GPCR pathways, but also include energy metabolism and immune responses, with no clear, shared function tying all proteins together.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0008542","count":10}]},{"hash":"322694323729036424","title":"Developmental differentiation and tissue morphogenesis","description":"The top GO terms cluster around development and tissue formation (chondrocyte differentiation, vascular development in the labyrinthine layer, roof of the mouth development, adipose tissue development, mesenchymal proliferation) with additional cellular trafficking processes (endosome-to-lysosome transport, Cvt pathway) that can accompany morphogenetic remodeling. This suggests a theme of proteins involved in developmental differentiation and tissue morphogenesis, rather than a single enzymatic function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":3},{"id":"GO:0002062","count":2},{"id":"GO:0060716","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0002053","count":2}]},{"hash":"379097433323494932","title":"Thermogenesis-linked energy metabolism and blood pressure regulation","description":"The cluster\u2019s top GO terms converge on energy production and heat generation (electron transport chain; diet-induced thermogenesis; heat generation) alongside vascular and kidney regulation (positive regulation of vasoconstriction; regulation of glomerular filtration; blood pressure). The GPCR signaling pathway (adenylate cyclase-activating) and Rho signaling point to signaling mechanisms controlling vascular tone and metabolic responses. A single outlier term about pain perception exists, but the dominant themes are thermogenesis and cardiovascular/renal regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0019233","count":15},{"id":"GO:0071502","count":15}]},{"hash":"134562374618461382","title":"Vascular inflammation and blood pressure signaling","description":"The cluster is enriched for vascular regulation and GPCR signaling terms (positive regulation of blood pressure, vasoconstriction, activation of adenylate cyclase) together with inflammatory and coagulation terms (inflammatory response, response to lipopolysaccharide, blood coagulation), suggesting a coherent theme linking vascular tone to immune and coagulation pathways. The electron transport chain term may reflect general cellular metabolism rather than a defining function of the cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0019233","count":6}]},{"hash":"2003633228792102347","title":"Developmental transcription and signaling regulation","description":"The cluster shows enrichment for GO terms involving regulation of transcription (DNA-templated), intracellular signal transduction, and control of endocytosis/autophagy, along with development-related processes like placenta morphogenesis and spermatid differentiation. This pattern suggests proteins that regulate gene expression and signaling pathways during development, even though some terms are obsolete.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0043553","count":1},{"id":"GO:0035556","count":1},{"id":"GO:0045806","count":1}]},{"hash":"1052125162143464680","title":"Viral Translation Initiation and Preinitiation Complex","description":"This cluster is dominated by GO terms related to translation initiation and reinitiation, including viral IRES-dependent initiation, translation reinitiation, and formation/regulation of the preinitiation complex, suggesting the proteins collaborate in initiating and controlling translation, especially under viral contexts. Additional terms about xenobiotic and TGF-beta responses and IL-2 regulation appear ancillary to this core function.","confidence":"High","size":22,"edges":32,"triangles":40,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0075522","count":4}]},{"hash":"786943925623376128","title":"Neuronal apoptosis and injury response","description":"The cluster is enriched for GO terms centered on neuronal cell fate under stress, especially neuron apoptotic processes and positive regulation of neuronal apoptosis, along with hippocampus development. Additional terms like wound healing and hypoxia response suggest a broader tissue injury/stress response context in neural tissue, with a few outliers (antibiotic response, platelet formation) that may reflect shared stress pathways or multifunctional proteins. Overall, the core theme ties neural stress-induced apoptosis to repair processes.","confidence":"Medium","size":22,"edges":160,"triangles":536,"max_degree":20,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043525","count":7},{"id":"GO:0021766","count":7},{"id":"GO:0046677","count":6},{"id":"GO:0051402","count":6},{"id":"GO:0042060","count":6}]},{"hash":"335426955466263079","title":"Developmental EMT and cytoskeletal remodeling","description":"The top terms cluster around epithelial-to-mesenchymal transition involved in heart development, lamellipodium and actin filament assembly, and broader endocrine/pancreatic development, suggesting a theme of developmental morphogenesis with cell motility. While there are accompanying general cellular processes (splicing, ribosomal export), the strongest cohesive signal is developmental differentiation coupled with cytoskeletal dynamics. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0051017","count":2},{"id":"GO:0030032","count":2},{"id":"GO:2000394","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1354968862299785582","title":"Mitochondrial Transporters and Metabolic Shuttles","description":"The top GO terms are dominated by transmembrane transport of metabolites and ions into and out of mitochondria (phosphate, CoA, NAD, thiosulfate, magnesium export, pyrimidine import) and by the malate-aspartate shuttle, pointing to a mitochondrial transport/shuttle function. The insulin response and liver regeneration hints reflect metabolic regulation linked to mitochondrial energy metabolism.","confidence":"High","size":22,"edges":43,"triangles":35,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":12},{"id":"GO:0035435","count":11},{"id":"GO:0035349","count":10},{"id":"GO:0043490","count":10},{"id":"GO:0015709","count":10}]},{"hash":"111703271449478403","title":"Mitotic spindle assembly and cell proliferation","description":"The top terms are dominated by mitosis-related processes (mitotic spindle assembly, mitotic cell cycle, microtubule-based movement) and growth/proliferation (multicellular organism growth, cell population proliferation), with additional hints of chromatin modification and vesicle transport that may regulate division during development. Overall, the cluster centers on mitosis and proliferation with supportive regulatory processes.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0035264","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0051568","count":6},{"id":"GO:0006888","count":6}]},{"hash":"320660411590381493","title":"Telomere maintenance and mitosis regulation","description":"The top GO terms cluster around telomere biology (telomere capping, telomeric localization) and mitotic chromosome management (spindle assembly, regulation of sister chromatid cohesion). This suggests a theme focused on preserving chromosome integrity during cell division. Some signaling terms (Wnt, ephrin) and poly-ADP-ribosylation appear as broader context or cross-talk, but the dominant signal points to telomere maintenance and mitotic processes. Confidence: Medium","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:1900383","count":3},{"id":"GO:1904743","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0070212","count":3}]},{"hash":"1173899230435440831","title":"Embryonic organogenesis and tissue morphogenesis","description":"The GO terms cluster around development and morphogenesis across multiple tissues (left-right patterning; palate, cartilage, and hair follicle morphogenesis; endocardial cushion EMT; placental and endocrine system development), suggesting proteins involved in embryonic organogenesis and tissue formation. A background of mRNA splicing aligns with general gene expression in developing cells, but the dominant theme remains developmental morphogenesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":22},{"id":"GO:0010957","count":22},{"id":"GO:0060972","count":22},{"id":"GO:0003198","count":22},{"id":"GO:0060021","count":22}]},{"hash":"1945811254589333797","title":"Mobile genetic elements and proviral integration","description":"The top GO terms point to DNA mobility and genome integration\u2014DNA transposition, retrotransposition, DNA integration, and proviral latency\u2014suggesting this cluster is enriched for mobilome-related functions. Some terms about symbiont interaction or cell adhesion may be noise, but the dominant signal is transposons and viral integration processes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048863","count":3},{"id":"GO:0015074","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0032197","count":2}]},{"hash":"1933918301330501131","title":"Neuroimmune Inflammatory Signaling","description":"This cluster combines innate immune responses (LPS and Gram-positive defense, dsRNA response, innate immune signaling) with neural signaling terms (dopamine response, synapse assembly, pain behavior), suggesting a module where immune cues intersect with neural activity and pain processing, i.e., neuroimmune inflammatory signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0043547","count":3}]},{"hash":"2157312257249792539","title":"BMP-driven Mesodermal Development","description":"The top GO terms center on BMP signaling, mesoderm formation, and related developmental processes (lung connective tissue development, nipple morphogenesis, and general transcriptional regulation during development), suggesting the proteins co-cluster around developmental signaling and tissue morphogenesis guided by BMP. Some terms (circadian rhythm, translational regulation, ERAD-related pathway) are broader or less tightly linked, so the connection is present but not exclusively developmental. Thus, the label reflects the core association with BMP-mediated mesodermal development, with medium confidence.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0030509","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0032781","count":2}]},{"hash":"430820656780535800","title":"Neuronal development and myelination signaling","description":"This cluster centers on neural development processes\u2014neuron maturation, migration, and branching\u2014together with myelination, and supported by diverse signaling pathways (dopamine receptor signaling, CAMKK-AMPK regulation, and related neuronal signaling). The GO terms point to a cohesive theme of neurons developing and acquiring mature function, despite some broader or immune-related terms like TLR signaling. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:1905289","count":3},{"id":"GO:0022028","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0035751","count":3}]},{"hash":"1452495837606203073","title":"Small Molecule Transporters","description":"The top GO terms are mainly transmembrane transport of small molecules (glucose, pantothenate, biotin, myo-inositol) and sodium export, pointing to a cluster of membrane transporter proteins. Some terms relate to ribosome export or development, but the dominant signal is transport across membranes for nutrients and ions.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":1},{"id":"GO:0008292","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0015878","count":1}]},{"hash":"752520429128832933","title":"Embryonic and placental development","description":"The top GO terms cluster around embryogenesis and placental/trophoblast development, left-right patterning, mesoderm formation, and related morphogenetic processes (including EMT and cartilage morphogenesis). This points to a shared role in early development and organogenesis, especially in embryonic and placental contexts, making \"Embryonic and placental development\" a representative label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0035270","count":7},{"id":"GO:0060536","count":7}]},{"hash":"1858406177756704429","title":"Vascular remodeling and angiogenesis regulation","description":"The terms point to vascular biology: negative regulation of angiogenesis, endothelial cell chemotaxis inhibition, smooth muscle proliferation and migration, cell-matrix adhesion, and signaling pathways (Rho and ERK) linked to vascular remodeling and coagulation. The cluster seems to group proteins involved in controlling blood vessel formation and smooth muscle/EC interactions rather than a single metabolic or cellular process.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0016525","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0048661","count":5}]},{"hash":"1728442692371536265","title":"Germ cell meiosis and fertilization processes","description":"The cluster\u2019s top GO terms cluster around reproductive biology, including copulation, sperm binding to the zona pellucida, and spindle assembly relevant to meiosis, with accompanying telomere regulation features that can relate to germ cell chromosomal dynamics. While some terms (like stem cell homeostasis) are broader, the strongest shared theme appears to be germ cell meiosis and fertilization, justifying this label.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061484","count":2},{"id":"GO:0007620","count":2},{"id":"GO:0007339","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0042518","count":2}]},{"hash":"1772524677199440553","title":"Embryonic organogenesis and heart development","description":"The top GO terms point to developmental biology, especially heart development, endocardial cushion formation, left-right patterning, and various lineage differentiations (placenta/trophoblast, cartilage, pancreatic endocrine), indicating a cluster of proteins involved in embryonic organogenesis and cardiovascular formation. While a couple of terms relate to general gene regulation (splicing, phosphorylation), the dominant signal is developmental processes. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010801","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060536","count":2}]},{"hash":"1432647542688424285","title":"Ubiquitin-Dependent Proteolysis and NF-kappaB Signaling","description":"The dominant GO terms point to ubiquitin-dependent protein catabolic processes, polyubiquitination, and autoubiquitination, indicating a core role for the ubiquitin-proteasome system. The presence of terms related to TNF/NF-kappaB signaling suggests the cluster regulates inflammatory signaling via ubiquitination. Some auxiliary terms (ERAD, circadian rhythm, vitamin D response) reflect broader ubiquitin-related roles, but the central theme ties proteolysis to signaling control.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:1903265","count":10},{"id":"GO:0033280","count":9},{"id":"GO:0060546","count":9},{"id":"GO:0043123","count":9}]},{"hash":"1762197708628588790","title":"Pigment and cofactor biosynthesis","description":"Top GO terms point to biosynthetic processes for chlorophyll, plastoquinone, phylloquinone (vitamin K), menaquinone, ubiquinone, heme O, tetrahydrobiopterin, pteridines, and queuosine. This pattern suggests a common theme of producing pigments and essential cofactors across diverse pathways, rather than a single unified pathway. Thus, naming it pigment and cofactor biosynthesis captures the overarching function of the cluster.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0010236","count":1},{"id":"GO:0042372","count":1},{"id":"GO:0042371","count":1}]},{"hash":"770052042587592289","title":"Unknown","description":"The proteins span diverse processes (sensory organ development, immune signaling, muscle development, transcription) with no single dominant theme, so a cohesive, specific label cannot be reliably assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0060119","count":2},{"id":"GO:0007628","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0002467","count":2}]},{"hash":"1607565466159204427","title":"Endothelial Adhesion and Coagulation","description":"Top GO terms cluster around endothelial cell-cell adhesion, cell-matrix adhesion, and blood coagulation, indicating a vascular adhesion/coagulation functional theme. The presence of prostaglandin biosynthesis suggests lipid mediator signaling relevant to inflammation and vascular tone, while the vitamin D response hints at broader regulatory cues in endothelial biology. Obsolete terms and detox-related processes appear as peripheral annotations but do not overturn the central vascular adhesion/coagulation signal. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071603","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0090503","count":2}]},{"hash":"139302985658911077","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072752","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0006396","count":2},{"id":"GO:0007053","count":2},{"id":"GO:1903608","count":2}]},{"hash":"571416552136111639","title":"Axon Guidance and Synapse Formation","description":"The cluster's most enriched GO terms are about neural development\u2014axonal fasciculation, axon extension, and positive regulation of synapse assembly\u2014indicating proteins that drive neural connectivity. Supporting terms involve lipid signaling (sphingosine/sphinganine metabolism) and regulation of vascular signals (angiogenesis/VEGF pathways), which can modulate neural development. Taken together, the dominant theme is axon guidance and synapse assembly, with associated signaling context.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0016525","count":2},{"id":"GO:1901223","count":2},{"id":"GO:1900747","count":2},{"id":"GO:0051965","count":2}]},{"hash":"148290669952556961","title":"Central Carbon Metabolism and Translation","description":"The cluster shows strong representation of core metabolic processes (glycolysis, TCA cycle, pyruvate decarboxylation to acetyl-CoA, serine biosynthesis, lipoylation, fatty acid biosynthesis) alongside a prominent signal for translation (GO:0006412). This pattern suggests a group of proteins involved in energy and carbon processing with a concurrent link to protein synthesis machinery, rather than a single specialized pathway. Some ancillary terms (sodium transport, mitochondrial genome maintenance) are less central to the main theme. Confidence reflects the clear metabolism-translation overlap, but the precise functional partitioning within the cluster warrants cautious interpretation.","confidence":"Medium","size":21,"edges":145,"triangles":583,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0006564","count":3},{"id":"GO:0009249","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0000002","count":2}]},{"hash":"815944864325248013","title":"Auditory hair cell signaling and junctions","description":"The cluster is dominated by GO terms tied to hearing and hair cell structure: sensory perception of sound, stereocilium organization, and localization of proteins to synapses, adherens junctions, and tight junctions. The inclusion of receptor clustering and a receptor guanylyl cyclase signaling pathway further supports a mechanosensory/hair cell signaling theme, suggesting these proteins function together in auditory transduction and the integrity of hair cell junctions, despite a few more general terms like protein dephosphorylation that may reflect regulatory processes.","confidence":"High","size":21,"edges":90,"triangles":195,"max_degree":17,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:2000821","count":10},{"id":"GO:0043113","count":10},{"id":"GO:0007605","count":8},{"id":"GO:0071896","count":8},{"id":"GO:0006470","count":8}]},{"hash":"132506655262210760","title":"Chromatin regulation and transcription control in development","description":"The top GO terms cluster around heterochromatin formation, chromatin assembly, and transcriptional repression, indicating a chromatin-regulatory core. Several terms also tie to developmental and hormonal processes (estradiol response, vitellogenesis, brain development, growth, pro-B cell differentiation), suggesting the cluster represents chromatin-mediated regulation during development and hormonal signaling.","confidence":"Medium","size":21,"edges":109,"triangles":401,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000183","count":10},{"id":"GO:0000122","count":9},{"id":"GO:0030466","count":7},{"id":"GO:0071392","count":7},{"id":"GO:0007296","count":7}]},{"hash":"476088369364056280","title":"Embryonic development and tissue morphogenesis","description":"This cluster centers on developmental processes across multiple tissues, including brain, heart, cartilage, pancreas, placenta, and patterning. The GO terms point to embryonic development, morphogenesis, and cell differentiation programs, with transcriptional regulation as a general underpinning. Overall, a theme of broad developmental tissue formation best represents the group.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:1903142","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4}]},{"hash":"302990020344959707","title":"Developmental Morphogenesis and Axon Guidance","description":"This cluster\u2019s top GO terms are dominated by development-related processes (multicellular organism development, ossification, axon extension and fasciculation, and cellular response to mechanical stimulus), suggesting roles in tissue morphogenesis and nervous system formation. While a couple of terms (e.g., spliceosome-mediated splicing, skin development) are less central, the overall theme points to developmental processes and axon guidance as the core function of these proteins. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1390015210281110562","title":"Mechanotransduction in muscle and tissue development","description":"The terms cluster around sensing and responding to mechanical cues, with links to cytoskeletal dynamics (actin patches, myofibril assembly), integrin signaling, tissue homeostasis, and growth. Ubiquitination hints at regulated protein turnover in these pathways, and sensory terms align with mechanosensory themes. Together, they suggest a theme of mechanotransduction guiding muscle function and tissue development.","confidence":"Medium","size":21,"edges":7,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0048873","count":3},{"id":"GO:0007605","count":3}]},{"hash":"2187002541047234073","title":"Germline Translation and RNA Processing","description":"The GO terms cluster around RNA metabolism and protein synthesis, including translation initiation and reinitiation, rRNA maturation, mRNA splicing, and transcription, suggesting core RNA processing and translation functions. The presence of germline-related terms (male gonad development and seminiferous tubule development) further points to a germline-specific context, making a cohesive label that captures both RNA processing and germline expression.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007568","count":3}]},{"hash":"503908511333330540","title":"Unknown","description":"The top GO terms span diverse processes from mRNA splicing and galactose-regulated transcription to multiple independent biosynthetic pathways (isoprenoid/mevalonate, galacturonate, threonine, methionine, glycolysis from galactose, cholesterol, GDP-L-fucose salvage), with no single unifying function. This makes a coherent label difficult, so I would classify it as Unknown rather than mislabeling it with an imprecise function.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000435","count":4},{"id":"GO:0019288","count":4},{"id":"GO:0046396","count":4},{"id":"GO:0009088","count":4}]},{"hash":"75033097544035895","title":"Root Meristem Growth and tRNA Modification","description":"The terms most representative of this cluster center on plant root development (root meristem growth, meristem structural organization, root-related growth) combined with specific tRNA modification processes (tRNA wobble uridine modification, 5-carbamoylmethyl uridine residue modification), suggesting a theme around root development linked to RNA modification machinery; other terms like phosphorylation and general cell growth appear as supporting processes but do not define the cluster as strongly. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045987","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0010449","count":1},{"id":"GO:0016049","count":1}]},{"hash":"366654556384058023","title":"ER-Golgi Vesicle Trafficking and Budding","description":"This cluster is dominated by GO terms for vesicle transport between the ER and Golgi, Golgi-to-ER retrograde transport, and vesicle budding (including synaptic vesicles and Cvt pathway targeting), all of which point to membrane trafficking and vesicle formation. The presence of GTPase activity regulation and related localization terms further supports a cohesive function in Rab/Arf-mediated trafficking and sorting. Overall, a vesicle trafficking and budding module best captures the shared theme. ","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0043547","count":3}]},{"hash":"426536447531451909","title":"Vesicle trafficking and organelle fusion","description":"This set centers on intracellular transport and membrane dynamics, including cytoplasm-to-vacuole targeting (autophagy-related trafficking), Golgi retention, and phagosome-lysosome fusion, with mitotic cytokinesis pointing to cell division coordination. A few terms touch on broader development, but the dominant theme is vesicle trafficking and organelle fusion processes that organize cellular compartments and surface structures.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032534","count":2},{"id":"GO:0032258","count":1},{"id":"GO:0048310","count":1},{"id":"GO:1904179","count":1},{"id":"GO:0090389","count":1}]},{"hash":"508321082008089547","title":"Rho-driven Actin Remodeling in Platelets","description":"The enrichment of actin cytoskeleton reorganization, regulation of Rho signaling, and microspike assembly, together with platelet formation and degranulation and calcium release regulation, suggests a cohesive module governing cytoskeletal dynamics linked to platelet activation and calcium signaling. Immune-related terms like IL-2 production are present but appear less central, while tissue growth and cell-number homeostasis reflect broader developmental context. Overall, the cluster seems to reflect actin remodeling coupled to platelet-associated signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030035","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0030220","count":3}]},{"hash":"1735618930126657564","title":"Cytoskeletal remodeling and cell migration","description":"The cluster's top GO terms center on actin-based structures (lamellipodium and filopodium assembly), cell adhesion and spreading, and small GTPase signaling, all of which drive cytoskeletal reorganization and directed cell movement. Additional terms relate to vascular remodeling and morphogenesis in development, consistent with processes where cell migration and shape change are essential. Taken together, the proteins in this cluster appear to function in cytoskeletal dynamics governing cell migration and adhesion.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001893","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0010572","count":4},{"id":"GO:1900026","count":4}]},{"hash":"351706997559998467","title":"Epithelial Polarity and Junction Assembly","description":"The term set is dominated by processes that establish epithelial cell polarity and cell-cell junctions: bicellular tight junction assembly, apical/basal polarity establishment, and microvillus assembly, plus centrosome localization and Rho signaling that organize the cytoskeleton and junctions. There is also a negative regulation of cell proliferation indicating tissue homeostasis, and occasional related processes like proteolysis. Some terms such as bile acid secretion and sensory perception of sound are less connected, but do not outweigh the central epithelial organization theme.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070830","count":5},{"id":"GO:0051660","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0045198","count":5},{"id":"GO:0030033","count":5}]},{"hash":"1373463230124689240","title":"GPCR Internalization and ERK Signaling","description":"The dominant terms are clathrin-dependent endocytosis and GPCR internalization, with positive regulation of the ERK/MAPK cascade, suggesting a core theme of GPCR trafficking and downstream signaling. Other terms (apoptosis, metabolic regulation) are present but less central, indicating a broader but secondary involvement. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0070374","count":2}]},{"hash":"635705208389762050","title":"Membrane Transporters","description":"This cluster shows multiple GO terms centered on transmembrane transport of diverse substrates (sodium, sialic acid, vitamins, xenobiotics, and other compounds) and related processes like neurotransmitter loading into vesicles, pointing to a shared function in membrane transport. A few terms about translation initiation and GTPase regulation are present but less representative of the core theme, so the dominant signal is membrane transport activity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006855","count":3}]},{"hash":"120567249310365358","title":"Embryogenesis and organ morphogenesis","description":"Reasoning: The top GO terms cluster around broad developmental processes across multiple tissues (mesoderm development, palate and placenta formation, cartilage and hair follicle morphogenesis, endocrine development, left-right patterning). This suggests proteins are involved in general embryonic development and tissue morphogenesis rather than a single tissue-specific function.","confidence":"High","size":21,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0010957","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1635564043939419303","title":"Proviral Integration and DNA Transposition","description":"The terms are dominated by DNA integration, transposition, retrotransposition, proviral latency, and viral entry into the host nucleus, alongside DNA replication-related processes. This suggests the cluster represents genome mobility elements (transposons/retrotransposons and proviruses) and their replication/establishment steps within the host genome rather than a single other pathway. There is some noise from host-symbiont interaction terms, but the mobility-oriented terms prevail.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0075732","count":3}]},{"hash":"1303817590537282339","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA maturation and export (ribosomal large subunit biogenesis, mRNA splicing, viral mRNA export) with additional signals related to transcription/chromatin regulation (histone methylation) and growth/growth signaling (TORC1, cell division), suggesting a core theme of RNA processing and protein synthesis machinery with related regulatory inputs. Confidence is Medium.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0046784","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000398","count":2}]},{"hash":"624751370764746787","title":"Transcription Regulation and Cell Cycle Signaling","description":"The dominant terms are DNA-templated transcription and transcription regulation by RNA polymerase II, with additional signals related to cell cycle processes (mitotic spindle pole separation) and various signaling/regenerative contexts (insulin signaling regulation, liver regeneration). This mix suggests a cluster centered on transcription control and cell-cycle\u2013related signaling rather than a single highly specific function, so a label that highlights both transcription regulation and cell cycle signaling best represents the group.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0046626","count":4},{"id":"GO:0032026","count":4},{"id":"GO:0010696","count":3},{"id":"GO:0030857","count":3}]},{"hash":"1220817462036725082","title":"Chromosome condensation during mitosis and meiosis","description":"Based on GO terms such as mitotic chromosome condensation, meiotic chromosome condensation, synaptonemal complex assembly, mitotic spindle assembly, and rDNA chromatin condensation, this cluster appears to be enriched for chromatin organization and chromosome condensation events involved in cell division. Some terms like ribosome biogenesis and ubiquitin-dependent ERAD pathway are present but less central to the main theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0030433","count":2}]},{"hash":"860851780265068380","title":"Ubiquitin-Dependent Proteolysis in Innate Immunity","description":"The cluster is driven by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination) alongside innate immune signaling (innate immune response, regulation of Toll-like receptor signaling). Additional terms point to ERAD, apoptosis regulation, and stress responses, suggesting proteins that coordinate protein turnover to modulate immune pathways and cell fate under stress. This forms a cohesive theme linking protein degradation with immune regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0000209","count":5},{"id":"GO:0045087","count":5},{"id":"GO:1903071","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1627219287306488790","title":"Cardiac sarcomere organization and heart function","description":"The cluster centers on sarcomere organization and cardiac muscle contraction, with strong signals for heart rate regulation and vascular smooth muscle regulation, suggesting a cohesive group of proteins involved in cardiac muscle structure, contraction, and related regulatory processes. Some secondary terms like transcription/splicing appear but do not define the main theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":9},{"id":"GO:1904706","count":9},{"id":"GO:0003065","count":9},{"id":"GO:0060048","count":9},{"id":"GO:0034609","count":9}]},{"hash":"578294833501185055","title":"Drosophila eye morphogenesis regulators","description":"This cluster prominently features GO terms tied to eye development and morphogenesis in Drosophila (eye-antennal disc development, compound eye morphogenesis) as well as embryogenesis contexts (syncytial blastoderm). Additional nuclear processes like mRNA splicing, chromatin localization, and ubiquitination appear, suggesting a set of regulatory proteins coordinating transcriptional/splicing control during development. Overall, the dominant pattern is regulatory proteins involved in eye development in the fruit fly.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071168","count":2},{"id":"GO:0010555","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0000350","count":1}]},{"hash":"1984101475324285881","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms cluster around transport across mitochondrial membranes (CoA, NAD, thiosulfate, pyrimidine nucleotides) and metabolic shuttles (malate-aspartate), plus related redox and export processes, suggesting a set of mitochondrial transporter proteins involved in metabolic exchange and antioxidant defense. Some terms like visual perception or liver regeneration are peripheral or noisy annotations, but the core signal points to mitochondrial transport/metabolism.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0097274","count":6},{"id":"GO:0007601","count":5},{"id":"GO:0035349","count":4},{"id":"GO:0043490","count":4},{"id":"GO:0015709","count":4}]},{"hash":"361938198761605325","title":"Neural development and transcriptional regulation","description":"This cluster is dominated by terms related to neural development and neuron fate specification, including peripheral nervous system neuron development, cerebral cortex GABAergic interneuron differentiation, spinal cord motor neuron and oligodendrocyte fate specification, and subpallium neuron fate commitment. It also features core transcriptional processes (transcription by RNA polymerase II, negative regulation of transcription by RNAP II). While there are a few broader developmental terms (primitive streak formation, bronchiole development, endocrine pancreas development), the strongest common theme is neurodevelopment coupled with transcriptional control.","confidence":"High","size":20,"edges":33,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0048935","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0006366","count":4},{"id":"GO:0021892","count":4}]},{"hash":"2129674636980918539","title":"Developmental Morphogenesis and Wound Healing","description":"This cluster is dominated by terms tied to tissue development and morphogenesis (keratinocyte development, epithelial morphogenesis, brain development) and wound healing (cell spreading), suggesting proteins involved in developmental processes and tissue remodeling. While other terms touch on metabolism or immune signaling, the strongest shared theme points to development and morphogenesis in tissues.","confidence":"Medium","size":20,"edges":29,"triangles":18,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006817","count":4},{"id":"GO:0000001","count":3},{"id":"GO:0001302","count":3},{"id":"GO:0003334","count":3},{"id":"GO:0003382","count":3}]},{"hash":"360644026183879849","title":"Developmental transcription regulation","description":"The cluster includes GO terms tied to transcription control (negative regulation of transcription by RNA polymerase II; DNA-templated transcription; regulation of cell cycle) alongside several lineage differentiation terms (oligodendrocyte differentiation, skeletal muscle differentiation, spermatid nucleus differentiation, trachea cartilage development). This mix suggests proteins involved in transcriptional regulation during development across multiple tissues, rather than a single pathway, and the sparse interactions (edge count 1) support a broad, dispersed function.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0048709","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007129","count":2},{"id":"GO:0071157","count":2}]},{"hash":"674791182324824846","title":"Neural signaling and sensory perception","description":"This cluster is dominated by neural-related terms: positive regulation of ERK1/2 signaling, dopaminergic synaptic transmission, visual perception and learning, pain perception, and cocaine-related behavioral responses, pointing to neuronal signaling and sensory processing as the core theme. Some immune or non-neural terms appear, likely reflecting shared pathways or multi-tissue roles, but they do not outweigh the neural signals.","confidence":"Medium","size":20,"edges":41,"triangles":37,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":10},{"id":"GO:0019233","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0050852","count":9}]},{"hash":"1738407808961141899","title":"Neuronal migration and actin cytoskeleton dynamics","description":"This cluster's top GO terms converge on neural development and cell motility: actin cytoskeleton organization, small GTPase-mediated signaling, and neuron projection development including radial glia\u2013guided migration, with links to synaptic potentiation. The common thread is GTPase-regulated cytoskeletal remodeling driving neuronal migration and outgrowth, indicative of neural development and plasticity processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0021816","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0046626","count":3}]},{"hash":"1926058581414154228","title":"RNA processing and ribosome biogenesis","description":"These proteins are strongly linked to RNA metabolism: mRNA export, alternative splicing, and mRNA stabilization, plus involvement in small-subunit processome assembly and translation initiation/reinitiation (including IRES-dependent processes). The combined signals point to a cohesive cluster of RNA processing and ribosome-related functions, rather than a single enzyme class.","confidence":"High","size":20,"edges":20,"triangles":0,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":6},{"id":"GO:1901407","count":5},{"id":"GO:0000380","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0001825","count":5}]},{"hash":"178819129950148091","title":"Neural and Skeletal Development with Adhesion Signaling","description":"The top GO terms are dominated by development-related processes, including multicellular organism development, skeletal system development, lens fiber differentiation, neuron projection development, and axon extension, with several terms pointing to integrin-mediated signaling and cell-cell adhesion, suggesting a theme of tissue formation and neural differentiation. Ribosome biogenesis appears as a general support function, while a few outliers (symbiont entry into host cell, response to cadmium ion) are less connected to the core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0046718","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0031175","count":4}]},{"hash":"1642191017646192246","title":"Developmental Differentiation and Proliferation","description":"These proteins associate with cell cycle and proliferation (cell division, mitotic cycle, population proliferation) and developmental processes (mesenchymal-to-epithelial transition, cell differentiation, male gonad development). Transcriptional and translational machinery (DNA-templated transcription, preinitiation complex) along with ER-Golgi trafficking suggest coordinated gene expression and protein processing typical of proliferating or differentiating cells. Overall, a developmental differentiation plus proliferation theme best fits the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0060231","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0008584","count":3},{"id":"GO:1900477","count":3}]},{"hash":"669040186358313299","title":"Unknown","description":"The top GO terms span several unrelated areas: mechanical signaling (cellular response to mechanical stimulus, response to muscle stretch), differentiation (fat cell differentiation), telomere biology (positive regulation of telomere capping/maintenance), and general cellular processes (protein ubiquitination, mRNA processing). The lack of a single coherent functional theme across these terms makes it unclear what specific biological function defines the cluster, so I label it Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0006397","count":4},{"id":"GO:1904355","count":4}]},{"hash":"2276718233887181108","title":"TLR-driven innate immune signaling","description":"The top GO terms are dominated by Toll-like receptor signaling pathways (TLR3, TLR7, TLR9) and innate immune response, with a related emphasis on interferon signaling, indicating a cluster centered on innate immune recognition and response. Some development and EMT terms appear but are not the core theme, so the label reflects the primary function implied by the strongest terms.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":2},{"id":"GO:0034138","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0060335","count":2}]},{"hash":"1921301910971373839","title":"Embryonic development and tissue morphogenesis","description":"The terms point to development and morphogenesis across multiple tissues\u2014left/right patterning, endocardial cushion EMT, roof-of-mouth development, hair follicle and cartilage morphogenesis, placenta-related differentiation, and endocrine system development. While mRNA splicing is also present, the dominant theme is embryonic organogenesis, so the cluster likely groups proteins involved in developmental patterning and tissue formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":20},{"id":"GO:0010957","count":20},{"id":"GO:0060972","count":20},{"id":"GO:0003198","count":20},{"id":"GO:0060021","count":20}]},{"hash":"822954631835762753","title":"Cytoskeleton dynamics and vesicle trafficking","description":"The cluster is dominated by GO terms related to cytoskeletal remodeling (Arp2/3 actin nucleation; microtubule-based movement) and intracellular transport (ER\u2013Golgi and Golgi\u2013ER trafficking). Pigmentation and neuron projection development also hinge on cytoskeletal guidance, linking these functions. While a few terms touch DNA repair or cell cycle, the overarching theme is cytoskeleton-driven transport and organization. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000724","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006890","count":4}]},{"hash":"1418679316145439899","title":"Unknown","description":"The terms span fungal growth (pseudohyphal/invasive growth) to neural and lens development, immune defense, and cell cycle/transcription, with no clear shared function or connectivity among the proteins. This lack of a coherent theme suggests no specific cluster label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":3},{"id":"GO:0007124","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0070306","count":2}]},{"hash":"691089167121664705","title":"Ubiquitin-Dependent Protein Degradation & Innate Immunity","description":"Most enriched terms center on ubiquitination and ubiquitin-dependent degradation (protein ubiquitination, autoubiquitination, and ERAD involvement) along with innate immune responses (defense against virus, innate immune response) and regulation of necroptosis. This suggests a cluster focused on ubiquitin-tagged protein turnover linked to antiviral signaling rather than a single non-related process.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4}]},{"hash":"931716774139887358","title":"Morphogenesis and Rho/Rac signaling proteins","description":"The cluster shows multiple morphogenesis terms (pericardium, midbrain, cardiac atrium) and GO terms for activation/regulation of Rac/Rho GTPase signaling, indicating proteins involved in developmental patterning and cytoskeletal regulation. Some terms (RNA splicing, vitellogenesis, pro-B cell differentiation) are less connected, but the dominant theme is morphogenesis with small GTPase signaling. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000973","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0090630","count":2},{"id":"GO:1904693","count":2},{"id":"GO:0035022","count":2}]},{"hash":"2018477172730815185","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by GO terms tied to ubiquitination and proteolysis (ubiquitin-dependent protein catabolic process; K33-linked ubiquitination), suggesting a shared function in protein turnover. The other terms are diverse (e.g., phototropism, germinal center formation, distal tubule morphogenesis), which may reflect annotation noise or multifunctional proteins, but the ubiquitin-related signals provide the clearest common theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:1990390","count":2},{"id":"GO:1904431","count":2},{"id":"GO:0032764","count":2},{"id":"GO:2000176","count":2}]},{"hash":"317094772436896571","title":"Yeast Bud Site Polarity and Actin Dynamics","description":"The GO terms point to yeast-like bud-site selection (bipolar and axial) coupled with actin cytoskeleton remodeling (Arp2/3-mediated nucleation, actin filaments, cortical patches) and related membrane trafficking processes (endocytosis, Golgi regulation). This combination strongly suggests regulation of cell polarity driven by actin dynamics during budding, making the label representative of the cluster\u2019s function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007121","count":5},{"id":"GO:2000601","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007120","count":4}]},{"hash":"422071830017551496","title":"Developmental Cell Adhesion and Migration","description":"The top GO terms cluster around cell migration and adhesion (regulation of cell migration; substrate adhesion-dependent cell spreading) and morphogenesis (endothelial tube lumen extension; imaginal disc growth), plus related developmental processes like stem cell maintenance. This suggests a theme of cell movement and tissue formation during development, with a couple of more general housekeeping terms present that are less central to the main signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030334","count":2},{"id":"GO:0034446","count":2},{"id":"GO:0032224","count":2},{"id":"GO:0045571","count":2},{"id":"GO:0006348","count":2}]},{"hash":"262828473147704238","title":"Vertebrate organogenesis signaling","description":"The top GO terms center on development of vertebrate organs (placenta, heart, retina, lens) and involve signaling pathways (Wnt, Rho, thrombin receptor) and phosphorylation, suggesting a cluster of proteins linked to organogenesis and its regulatory signaling. A few terms (like xylan catabolic process) seem unrelated and may be noise, but the dominant theme is vertebrate organ development and associated signaling. Confidence in this label is medium due to the mixed signals and lack of cohesive interaction data.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":3},{"id":"GO:0018107","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0090263","count":2},{"id":"GO:0090307","count":2}]},{"hash":"2130591379828257827","title":"Neurodevelopment with ciliary and Wnt signaling","description":"Most terms point to neural development and brain formation (neuron/brain development), with supporting processes in ciliogenesis and Wnt signaling regulation, plus related morphogenesis (gastrulation). A couple of terms (egg activation, interferon signaling) are less connected but do not override the predominant developmental theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":2},{"id":"GO:0007343","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0060027","count":1}]},{"hash":"936116092362841156","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0003338","count":2},{"id":"GO:0021536","count":1},{"id":"GO:0060425","count":1}]},{"hash":"1294542762743943074","title":"Endocrine gland development with transcription regulation","description":"The top GO terms are dominated by endocrine gland development (endocrine pancreas, pancreas, pituitary, Harderian gland) and related differentiation terms, along with several RNA polymerase II transcription-related terms, suggesting a cluster enriched for endocrine gland development with underlying transcriptional control.","confidence":"Medium","size":19,"edges":82,"triangles":158,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":8},{"id":"GO:0021983","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0006351","count":6}]},{"hash":"506106440438664615","title":"Epithelial polarity and adhesion","description":"The top GO terms cluster around epithelial tissue organization: maintenance of polarity of follicular epithelium, follicle cell adhesion, and regulation of integrin-mediated adhesion, plus brush border assembly, all pointing to epithelial cell polarity and adhesion in development. Some terms extend to sensory epithelia (equilibrioception, photoreceptor cell differentiation), reinforcing a theme of epithelial structure across tissues. While other terms are broader (apoptotic process, synapse plasticity), the core signal is epithelial polarity and adhesive interactions shaping tissue architecture.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0050957","count":3},{"id":"GO:0001751","count":3},{"id":"GO:0051835","count":3}]},{"hash":"2015301532064213773","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle Regulation","description":"The cluster is dominated by ubiquitin-related processes: SCF- and APC/C-dependent proteolysis, various forms of ubiquitination (K11-linked, autoubiquitination), proteasomal degradation, ERAD, and neddylation, all of which tie closely to cell division control (anaphase-promoting complex activity) and genome maintenance (nucleotide-excision repair). The inclusion of peroxisomal protein import (which involves ubiquitin cycling) reinforces the central theme of ubiquitin-proteasome\u2013mediated regulation across multiple cellular pathways. Confidence: High","confidence":"","size":19,"edges":161,"triangles":830,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":17},{"id":"GO:0070911","count":16},{"id":"GO:0070979","count":16},{"id":"GO:0016032","count":16},{"id":"GO:0031145","count":15}]},{"hash":"446841837250276118","title":"Actin cytoskeleton remodeling and endocytosis","description":"This cluster is enriched for GO terms tied to actin dynamics and endocytosis, notably Arp2/3 complex-mediated actin nucleation, actin cortical patch assembly, and regulation of endocytosis, pointing to a cohesive theme around actin-driven membrane trafficking. While other terms (developmental processes, obsolete terms) appear, they seem less central to the core shared function of the proteins. Overall, the dominant signal is actin cytoskeleton remodeling linked to endocytic processes.","confidence":"Medium","size":19,"edges":120,"triangles":489,"max_degree":16,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0032508","count":12},{"id":"GO:0030100","count":10},{"id":"GO:0000147","count":10},{"id":"GO:0021762","count":10},{"id":"GO:0030476","count":10}]},{"hash":"1139393057581697549","title":"Potassium Ion Homeostasis and Membrane Potential Regulation","description":"This cluster centers on potassium ion homeostasis and membrane potential regulation, including transport/export/import and resting potential stabilization, with supporting terms from excitable tissue signaling (cardiac repolarization) and sensory perception. The recurring theme is potassium handling to maintain membrane potential in cells.","confidence":"High","size":19,"edges":63,"triangles":73,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030007","count":12},{"id":"GO:0030322","count":10},{"id":"GO:0071805","count":9},{"id":"GO:0050976","count":9},{"id":"GO:0098914","count":9}]},{"hash":"43394467726471930","title":"Vertebrate Development and Morphogenesis","description":"The top GO terms are heavily weighted toward developmental processes (mammary gland development, cartilage development, neural crest cell migration, somitogenesis, corticospinal tract morphogenesis, semicircular canal formation, etc.), suggesting that the proteins group around vertebrate development and tissue patterning. There are also links to basic gene expression mechanisms (RNA polymerase III preinitiation complex assembly, mRNA splicing) and chromatin organization (subtelomeric heterochromatin formation), implying collaborators in transcriptional regulation during development. Overall, the cluster appears to reflect developmental morphogenesis with supportive transcriptional machinery.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030879","count":2},{"id":"GO:0051216","count":2},{"id":"GO:0070898","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0001756","count":2}]},{"hash":"2168627495589395623","title":"Vertebrate Neural and Organ Development","description":"The top GO terms point to broad developmental processes with a neural/sensory emphasis (brain and forebrain development, retina and visual perception, nerve myelination, neural crest formation) plus organogenesis (heart and gonad development). This suggests a cohesive theme of vertebrate embryonic development across neural, sensory, and other organ systems.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007338","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1969317680174616870","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0048839","count":6},{"id":"GO:0007605","count":5},{"id":"GO:1903142","count":5}]},{"hash":"1064812354349559337","title":"Integrin-ECM adhesion and signaling","description":"This cluster centers on cell-matrix adhesion: calcium-independent adhesion, hemidesmosome assembly, substrate adhesion-dependent spreading, and collagen fibril organization, all suggesting integrin-ECM interactions. The PI3K/AKT signaling term ties adhesion to intracellular signaling. Developmental and regeneration terms (heart development, mesenchymal-epithelial signaling in prostate development, axon regeneration) align with ECM roles in morphogenesis and repair, while NK cell differentiation may reflect ECM-influenced microenvironments. Overall, these proteins seem to function in integrin-mediated ECM adhesion and signaling.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007161","count":6},{"id":"GO:0031581","count":6},{"id":"GO:0043491","count":6},{"id":"GO:0034446","count":6},{"id":"GO:0060739","count":6}]},{"hash":"1542706879892857495","title":"Vesicle trafficking and membrane remodeling","description":"The top GO terms converge on vesicle exocytosis/fusion, Golgi organization, membrane addition during cytokinesis, and autophagosome-related localization, together pointing to a shared role in vesicle trafficking and membrane dynamics during cell growth and division (with lipid metabolism tangentially supporting membrane processes). Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007030","count":2}]},{"hash":"2049156070692087456","title":"Mitotic division and cell polarity","description":"The top GO terms center on mitosis (mitotic spindle assembly, mitotic cell cycle) and on cellular organization and polarity (establishment/maintenance of cell polarity, tight junction assembly), with related trafficking (Golgi to plasma membrane transport). While some terms are peripheral (e.g., xenobiotic response, vesicle endocytosis), the dominant theme ties cell division to polarity and membrane trafficking. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0042994","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1900242","count":2}]},{"hash":"536028891083117167","title":"ERK Signaling and Developmental Regulation","description":"This cluster is enriched for terms tied to signaling and development, especially positive regulation of the ERK1/ERK2 cascade, GTPase activity regulation, and DNA-templated transcription, along with retina and skeletal morphogenesis. These together suggest a group of proteins involved in growth factor\u2013driven signaling that controls cell fate and differentiation. The presence of apoptosis/cytolysis and metabolic regulation terms indicates additional roles in cell survival and metabolic signaling, but the dominant theme centers on developmental signaling pathways. Therefore, a concise label focusing on ERK-mediated signaling and developmental regulation best captures the cluster\u2019s core function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0070374","count":2}]},{"hash":"119628955084150512","title":"Neuronal lipid metabolism and synapse remodeling","description":"The top GO terms cluster around lipid catabolism/remodeling (triglyceride and phospholipid pathways) alongside neuronal functions (sensory perception of sound, locomotory behavior, and synapse assembly). This suggests proteins involved in lipid turnover within neurons and in synaptic development/organization, with possible signaling modulation via PKA. Confidence: High","confidence":"","size":19,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0010898","count":3},{"id":"GO:0046338","count":3},{"id":"GO:0034638","count":3},{"id":"GO:0036153","count":3}]},{"hash":"1774803546105424855","title":"Embryogenesis and organ morphogenesis","description":"The GO terms are dominated by embryonic development and tissue/organ morphogenesis, including heart EMT, placenta and endocrine system development, left-right patterning, cartilage morphogenesis, and palate development, suggesting a group of proteins involved in early development and organ formation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":9},{"id":"GO:0003323","count":9},{"id":"GO:0060806","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060707","count":9}]},{"hash":"1540646768367962914","title":"Unknown","description":"The top GO terms span diverse biological processes (Wnt signaling, proteasome assembly, spindle assembly, salicylic acid signaling, pain perception, calcium transport, actin assembly, ADP-ribosylation, ubiquitination, telomere maintenance) with no clear unify function or pathway. With no edges or cohesive theme across these terms, there isn\u2019t a single representative function for the cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":6},{"id":"GO:0070682","count":6},{"id":"GO:0051225","count":6},{"id":"GO:2000031","count":6},{"id":"GO:0050968","count":6}]},{"hash":"96608711348577080","title":"Cell Cycle and Genome Maintenance","description":"The cluster shows enrichment for spindle assembly, telomere capping/maintenance, and regulation of cyclin-dependent kinase activity, which together point to cell cycle control and genome integrity. While a few terms like mRNA processing and differentiation appear, the dominant signal is processes tied to cell division and chromosome maintenance, justifying the label. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":5},{"id":"GO:1904355","count":5},{"id":"GO:0051225","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0045444","count":5}]},{"hash":"2009793602292522889","title":"Unknown","description":"GO terms are highly heterogeneous (neural activity, memory, Schwann development, ion transport, cell cycle, myoblast fusion, plant signaling, lithium/ion responses) and lack a unifying function; with no edges, a single coherent cluster name cannot be inferred.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0007616","count":2},{"id":"GO:0014044","count":2},{"id":"GO:0006816","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2100362890278504399","title":"Diverse Biosynthetic Pathways","description":"The predominant GO terms reflect biosynthesis of a range of metabolites and cofactors\u2014central metabolism (TCA cycle), vitamin and amino acid biosynthesis (thiamine, lysine), and production of cell-wall and plant pigments (lipoteichoic acid and anthocyanin). While several terms are obsolete, the unifying theme is the synthesis of diverse metabolites rather than a single process, suggesting a cluster of enzymes involved in general biosynthetic capacity across organisms. Some unrelated terms (e.g., olfactory development) may be annotations noise.","confidence":"Medium","size":18,"edges":31,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0019878","count":4},{"id":"GO:0009228","count":3},{"id":"GO:0070395","count":3}]},{"hash":"297092627735605889","title":"Glycan and lipid metabolism","description":"The cluster is enriched for carbohydrate-related biosynthetic and metabolic terms (carbohydrate metabolic process; N-acetylneuraminate and N-acetylglucosamine biosynthesis; glycolate biosynthetic process) and lipid-associated reactions (lipopolysaccharide biosynthetic process, phospholipid dephosphorylation, epoxygenase P450 pathway). This suggests a common theme of glycan assembly and lipid metabolism, with a few outlier terms like substantia nigra development that are likely noise. Therefore, the label reflects the dominant functional thread.","confidence":"Medium","size":18,"edges":43,"triangles":51,"max_degree":10,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0070574","count":3},{"id":"GO:0046380","count":3}]},{"hash":"1994282182406912861","title":"Neuronal development and synaptic signaling","description":"The cluster shows strong enrichment for nervous-system-related GO terms (Schwann cell development, visual perception, long-term synaptic potentiation, excitatory postsynaptic potential), pointing to roles in neural differentiation and synaptic plasticity. While cell-cycle and phosphorylation-related terms are present, the dominant theme appears to be neural development and synaptic function.","confidence":"Medium","size":18,"edges":139,"triangles":620,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":18},{"id":"GO:0000278","count":18},{"id":"GO:0009738","count":18},{"id":"GO:0043065","count":18},{"id":"GO:0060079","count":18}]},{"hash":"817938533782318907","title":"Signaling Pathway Regulators","description":"The terms point to modulation of various signaling and regulatory processes (GTPase activity, NF-kappaB signaling, kinase activity, cytokinesis), with additional notes on differentiation and sensory/brain-related processes. The common thread is proteins that tune signaling cascades and cellular decisions rather than a single, cohesive pathway, so a general label like \u201cSignaling Pathway Regulators\u201d fits best.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0043123","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0032465","count":5},{"id":"GO:0060487","count":5}]},{"hash":"26619607305811983","title":"Embryogenesis and Mitochondrial Regulation","description":"This cluster is enriched for developmental GO terms (heart development, blastocyst development, multicellular organism development) and mitochondrial functions (mitochondrial ATP synthesis, cardiolipin remodeling) plus apoptosis-related terms, pointing to proteins involved in embryogenesis with mitochondrial signaling and cell-survival control.","confidence":"High","size":18,"edges":12,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0043065","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0001824","count":4}]},{"hash":"1128135077768132056","title":"Unknown","description":"The top GO terms cover a wide and disparate set of processes (apoptosis, mRNA processing, organ morphogenesis, chromosome separation, membrane targeting, endosome transport, immune differentiation, and radiation response) with no single unifying function. This broad mix suggests there isn\u2019t a cohesive, specific biological theme tying these proteins together, so a concise, representative label is not definable.","confidence":"","size":18,"edges":136,"triangles":593,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":18},{"id":"GO:0006397","count":18},{"id":"GO:0060425","count":18},{"id":"GO:0051304","count":18},{"id":"GO:0090314","count":18}]},{"hash":"1110451504223521673","title":"Catabolic Metabolism and Stress Response","description":"This cluster is dominated by GO terms for catabolic processes (leucine and valine degradation, long-chain fatty acid catabolism, dibenzothiophene catabolism) and stress-related responses (response to starvation, response to cold), suggesting a theme of energy-yielding metabolism and adaptation to nutrient/temperature stress. Some outliers like heart development and cell-matrix adhesion may reflect annotation noise or multifunctional proteins, but the strongest signal ties to metabolism and stress response.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0007507","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0006552","count":3},{"id":"GO:1904070","count":3}]},{"hash":"124249175833799810","title":"RNA Processing and Translation Regulation","description":"The terms cluster around RNA maturation and handling (mRNA export, splicing, stabilization, rRNA decay) together with control of transcription and translation (including viral IRES-driven initiation and reinitiation). This points to a cohesive theme of RNA metabolism and gene-expression regulation, encompassing both cellular and viral translation mechanisms, despite the absence of observed edges in the network. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0070651","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0000380","count":2}]},{"hash":"1066180240152575715","title":"Neural development and axon guidance","description":"The top GO terms center on nervous system development, including motor neuron and retinal ganglion axon guidance, peripheral nervous system neuron axogenesis, and glial differentiation, with additional development-related terms like somite specification and Notch signaling regulation, suggesting a cohesive theme of neural patterning and connectivity. A few terms (e.g., platelet aggregation) appear as incidental noise but do not override the dominant neural-development signal.","confidence":"High","size":18,"edges":79,"triangles":139,"max_degree":14,"top_function":"wound healing","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0045746","count":8},{"id":"GO:0014807","count":7},{"id":"GO:0001757","count":7},{"id":"GO:0070527","count":6}]},{"hash":"997462664602133937","title":"Unknown","description":"The top terms are highly diverse, spanning DNA replication, cytoskeletal remodeling (Rac signaling, lamellipodium assembly), cell adhesion, infection-structure formation, and even obscure or obsolete terms, with no single coherent function tying all proteins together. There isn\u2019t a clear, common theme to label this cluster meaningfully.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0075015","count":3},{"id":"GO:0035753","count":2},{"id":"GO:0070940","count":2},{"id":"GO:0022011","count":2}]},{"hash":"2023535884814041169","title":"Embryonic organogenesis and tissue morphogenesis","description":"Proteins in this cluster are enriched for diverse embryonic development and tissue morphogenesis processes, spanning mesoderm formation, cartilage/hair/palate development, endocardial cushion EMT, trophoblast/placental differentiation, and endocrine system development. The inclusion of spliceosome-mediated mRNA splicing and regulation of RNA polymerase II\u2013dependent transcription suggests coordinated gene expression control during organogenesis, supporting a unifying theme of embryonic tissue morphogenesis.","confidence":"High","size":18,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":13},{"id":"GO:0000398","count":12},{"id":"GO:0010957","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0035270","count":12}]},{"hash":"1043815035936621344","title":"Embryonic development and morphogenesis","description":"Although a couple of top terms relate to general RNA processing (ribosomal export, mRNA splicing), the majority of the most frequent GO terms describe developmental processes across tissues (mesoderm development, roof of mouth formation, hair follicle morphogenesis, endocrine system development, epithelial-to-mesenchymal transition in heart/endocardial cushion formation). This suggests the cluster captures genes involved in developmental regulation and organogenesis rather than a single molecular function.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":6},{"id":"GO:0000398","count":6},{"id":"GO:1903026","count":6},{"id":"GO:0031069","count":6},{"id":"GO:0060707","count":6}]},{"hash":"974971719514553957","title":"Diverse metabolite biosynthesis","description":"The top GO terms cluster around biosynthetic and metabolic processes for a range of compounds, including steroids (testosterone, estrogen, androgens), lipids (mycolic acids, sphingolipids), retinal metabolism, and plant secondary metabolites (tropane alkaloids). While there are some outliers (e.g., transcription regulation, acetoin catabolism), the dominant theme is synthesis of diverse metabolites, suggesting this cluster groups enzymes involved in various biosynthetic pathways rather than a single pathway.","confidence":"Medium","size":18,"edges":73,"triangles":148,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":14},{"id":"GO:0061370","count":13},{"id":"GO:0071768","count":13},{"id":"GO:0030148","count":13},{"id":"GO:0006703","count":13}]},{"hash":"1886982667902860944","title":"Embryonic development and morphogenesis","description":"This cluster is dominated by GO terms related to vertebrate development and tissue morphogenesis, including mesoderm formation, hair follicle and palate morphogenesis, heart-related EMT, cartilage development, endocrine organ development, and left-right patterning, indicating a cohesive theme of embryogenesis and organogenesis rather than a single pathway.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010957","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0031069","count":17},{"id":"GO:0003198","count":17},{"id":"GO:0007498","count":17}]},{"hash":"877917938823431976","title":"RNA Pol II Transcription and Processing","description":"Most terms point to RNA polymerase II\u2013driven transcription (start site selection, elongation, termination) and RNA processing events (polyadenylation, exosome-dependent termination), including snoRNA transcription. This suggests a cohesive group of proteins involved in transcription and associated RNA processing by Pol II.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":1},{"id":"GO:0001174","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0009302","count":1},{"id":"GO:0030847","count":1}]},{"hash":"1850309830008699284","title":"DNA replication and chromatin regulation cluster","description":"The top terms are dominated by DNA-related processes (replication, recombination, integration) and chromatin regulation (chromatin binding, mediator complex assembly), indicating a genome maintenance/ transcriptional regulation theme; a couple of neuronal terms are present but less representative.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0002805","count":3},{"id":"GO:0071158","count":3}]},{"hash":"1587067407458681063","title":"Developmental transcriptional regulation (neural emphasis)","description":"This cluster is dominated by transcription-related GO terms (negative regulation of transcription by RNA Pol II; transcription by RNA Pol II) and neural development terms (retina development, neuroblast differentiation, regulation of terminal button organization), suggesting a core role in controlling gene expression during development, especially in neural tissues. The presence of osteoblast development and lipid catabolic processes implies broader developmental/metabolic connections, but the transcriptional and neural signals are the strongest theme.","confidence":"Medium","size":18,"edges":143,"triangles":671,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0002087","count":7},{"id":"GO:0002076","count":7},{"id":"GO:0006366","count":5}]},{"hash":"1053415020569602892","title":"Embryonic organogenesis and tissue development","description":"The GO terms cluster around diverse developmental processes across multiple organs\u2014heart development, pancreatic and placental development, left/right patterning, cartilage formation, EMT in heart formation, endocrine development, and kidney filtration regulation\u2014indicating a common theme of embryonic organogenesis and tissue differentiation rather than a single pathway. This makes \"Embryonic organogenesis and tissue development\" a specific, representative label for the cluster.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0035270","count":2}]},{"hash":"2026588082076282982","title":"Mitochondrial metabolism and translation","description":"The top GO terms are dominated by mitochondrial electron transport (NADH to ubiquinone) and translation, with additional signals from cytoskeleton regulation and microtubule-dependent transport, suggesting a theme around energy production coupled to protein synthesis and organelle dynamics.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":3},{"id":"GO:0070584","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0009408","count":1},{"id":"GO:0016242","count":1}]},{"hash":"548003365440356115","title":"Secretory Pathway and Vesicle Trafficking","description":"Based on the top GO terms, the cluster is dominated by processes related to the secretory pathway and vesicle handling: protein glycosylation in the secretory route, acrosome exocytosis, synaptic vesicle clustering, and endosome-to-plasma membrane transport. While a few immune or neuromuscular terms appear, the aggregation around trafficking and secretion suggests this cluster reflects vesicle trafficking and secretory processes rather than a single specialized function. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0007340","count":2},{"id":"GO:0044381","count":1},{"id":"GO:0030282","count":1},{"id":"GO:0097091","count":1}]},{"hash":"2007445675220671480","title":"Neural, Skeletal, and Cardiac Development","description":"Dominant GO terms center nervous system and brain development, inner ear development, and bone ossification, with a weaker signal for cardiac muscle action potential regulation; together these terms point to vertebrate developmental processes spanning neural, skeletal, and cardiovascular lineages, while a few chromatin regulation and immune-related terms may reflect broader regulatory roles or annotation artifacts.","confidence":"Medium","size":18,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0043966","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1437122661642893492","title":"Neural development and translational regulation","description":"This cluster is characterized by neural-development terms such as brain development and inner ear development, along with multiple translation-related terms (formation of translation preinitiation complex, translation reinitiation, regulation of translational initiation, IRES-dependent viral translation). The co-occurrence suggests proteins involved in neural development that also modulate mRNA translation during development and synapse formation, rather than a single isolated process.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0002188","count":3}]},{"hash":"2206583163573009573","title":"Neuronal signaling and RNA processing","description":"This cluster is enriched for GPCR signaling and synaptic regulation terms (e.g., GPCR pathway activating PKC, regulation of synaptic plasticity via receptor localization to the synapse, SNARE complex regulation, and dendrite development) along with mRNA processing and stability. Together, these point to a module involved in neuronal communication and post-transcriptional control, though a few terms (meiotic recombination, telomere regulation) appear peripheral or broader annotations.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0098907","count":7},{"id":"GO:0006397","count":6},{"id":"GO:1900383","count":6},{"id":"GO:0010845","count":6}]},{"hash":"2014546639918520522","title":"Melanosome-Endosome Trafficking and Neural Migration","description":"The cluster shows strong signals for melanosome transport and endosome-to-melanosome trafficking, along with autophagosome and lysosomal pathway regulation, secretory pathway regulation, and neural development/migration terms (cerebral cortex migration, olfactory bulb interneuron precursors). This suggests a cohesive theme around intracellular trafficking through melanosome/endosome/lysosome routes that can influence neural development and neuron migration. The presence of a mitotic cell cycle term is noted but appears less central to the core theme. ","confidence":"Medium","size":18,"edges":31,"triangles":7,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0032402","count":7},{"id":"GO:1902902","count":7},{"id":"GO:0035646","count":7},{"id":"GO:1903206","count":7}]},{"hash":"1652632400146016635","title":"RNA processing and translation regulation","description":"This cluster centers on RNA metabolism and control of translation, with terms spanning alternative splicing, mRNA stability and processing, spliceosome assembly, and translation initiation/reinitiation (including IRES and viral contexts). While also touching on ncRNA-mediated silencing, the dominant theme ties to RNA processing and regulation of protein synthesis.","confidence":"Medium","size":18,"edges":4,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0048255","count":3}]},{"hash":"1945862275595833635","title":"Glutamatergic synaptic signaling and vision","description":"Dominant GO terms center on glutamatergic synaptic transmission, excitatory postsynaptic potentials, and detection of light stimulus, suggesting a neural signaling and visual processing theme. Additional terms like long-term memory and regulation of synaptic transmission reinforce a neuronal communication context, though a few terms are broader. Overall, the label captures the core function represented by the cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0050908","count":1},{"id":"GO:0007616","count":1},{"id":"GO:0060079","count":1},{"id":"GO:0050806","count":1}]},{"hash":"857781962239701923","title":"Embryonic organogenesis and patterning","description":"Based on the top GO terms, this cluster centers on developmental programs spanning endocrine/pancreatic cell development, mesoderm formation, and various morphogenetic processes (cartilage morphogenesis, roof of the mouth, placenta/trophoblast formation), as well as left-right axis patterning. The common theme is embryonic development and tissue morphogenesis across multiple lineages, suggesting a label that captures organogenesis and spatial patterning during development.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0007498","count":5}]},{"hash":"180666231866277359","title":"Ribosome Biogenesis and RNA Processing","description":"The top GO terms cluster around ribosome production and RNA maturation, including ribosomal large subunit biogenesis and maturation of SSU/LSU/5.8S rRNA, plus mRNA splicing and DNA-templated transcription, suggesting a group of nuclear factors coordinating RNA processing and ribosome assembly. The histone methylation terms are labeled obsolete, and the seminiferous tubule development term may be incidental to a broader expression pattern. Overall, a coherent theme is ribosome biogenesis and RNA processing.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0034729","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0000466","count":3}]},{"hash":"2199932093474579906","title":"Rho/Rap GTPase Signaling in Actin and Junction Remodeling","description":"This cluster shows enrichment for Rho/Rap GTPase\u2013mediated regulation of actin cytoskeleton and junctional processes, including adherens junction localization, endothelial barrier establishment, and spine morphogenesis. The convergence on actin remodeling and cell\u2013cell contacts, plus some vesicle trafficking components, supports a cohesive theme of cytoskeleton- and junction-dynamics governed by small GTPases.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0090110","count":2},{"id":"GO:0032486","count":2}]},{"hash":"172700044854848967","title":"Mitochondrial tRNA charging and translation","description":"The cluster is enriched for mitochondrial tRNA aminoacylation (lysyl, aspartyl, phenylalanyl, asparaginyl), tRNA processing, and translation, indicating mitochondrial protein synthesis machinery; a few terms such as DNA-templated transcription or aldosterone response appear peripheral or ambiguous.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071915","count":1},{"id":"GO:0070154","count":1},{"id":"GO:0070146","count":1}]},{"hash":"2267774919565400439","title":"Unknown","description":"The terms span neural development (synapse assembly, myelination, heart development), broad signaling (ERK cascade, GPCR signaling, Rho signaling, adenylate cyclase pathway), and immune/metabolic processes (immune response, defense to bacterium, electron transport chain). This mix does not converge on a single cohesive function, so a specific, intuitive label isn\u2019t supported. Therefore, Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0022900","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0045777","count":2},{"id":"GO:0042742","count":2}]},{"hash":"1831636480205009693","title":"Metabolite and Ion Transporters","description":"Proteins in this cluster are linked to a broad set of transmembrane transport activities, including nitrate and sodium/potassium ion transport, sialic acid transport, vitamin transport, and xenobiotic/metabolite transport, as well as neurotransmitter loading into synaptic vesicles. The unifying theme is membrane transport across cellular boundaries for diverse substrates, indicating these are transport proteins with varied substrate specificities.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0098700","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0015739","count":1}]},{"hash":"1368391672752683070","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007611","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1902171","count":1},{"id":"GO:0021692","count":1},{"id":"GO:0055088","count":1}]},{"hash":"710561729237860354","title":"Transcription Regulation and Muscle Development","description":"These proteins show enrichment for regulation of transcription by RNA polymerase II (both positive and negative) along with muscle and heart development terms (skeletal muscle tissue development, heart development) and some differentiation terms (intestinal epithelial cell differentiation). This points to a core theme of transcriptional control intertwined with muscle/heart developmental processes, possibly with roles in protein turnover via ubiquitination pathways. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0007519","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0060575","count":2},{"id":"GO:0045944","count":2}]},{"hash":"53527559683406741","title":"Unknown","description":"The top GO terms span very different biological themes: Notch signaling, several amino acid catabolic/biosynthetic processes (including alanine, kynurenine, lysine, phenylalanine), sodium ion transport, defense response to virus, fatty acid homeostasis, sphinganine biosynthesis, and fruit ripening. This mix covers signaling, metabolism, transport, and plant/immune processes with no clear unifying function for the cluster, and some terms are obsolete, making interpretation murky. Therefore, there isn\u2019t a coherent label beyond Unknown.","confidence":"","size":17,"edges":37,"triangles":30,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0097053","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0006814","count":3}]},{"hash":"342337389725131570","title":"Telomere maintenance and DNA replication","description":"These proteins cluster around chromosome end maintenance and replication processes: multiple terms reference telomere maintenance, telomerase activity regulation, and replication-associated events such as RNA primer removal, replication fork progression, and DNA unwinding. The coherence suggests a functional group focused on preserving genome integrity during replication, with potential ties to DNA damage response and apoptotic regulation.","confidence":"High","size":17,"edges":47,"triangles":67,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032508","count":7},{"id":"GO:0043065","count":6},{"id":"GO:1903469","count":6},{"id":"GO:0000002","count":6},{"id":"GO:0006310","count":6}]},{"hash":"1531127564234437268","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":105,"triangles":393,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0006311","count":12},{"id":"GO:0006310","count":12},{"id":"GO:0048701","count":12},{"id":"GO:2000616","count":12}]},{"hash":"41357205173315767","title":"Bacterial Biosynthetic Pathways","description":"The top GO terms are dominated by various biosynthetic processes (antibiotic biosynthesis, fatty acid biosynthesis, menaquinone biosynthesis, lipoteichoic acid biosynthesis, and nonribosomal peptide-related activation), indicating enzymes involved in assembling diverse bacterial metabolites and cell-wall components. Some terms like seed coat development and bioluminescence appear peripheral or noisy, but the core signal is cohesive around biosynthesis in bacteria.","confidence":"High","size":17,"edges":18,"triangles":5,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0019427","count":4},{"id":"GO:0000038","count":4},{"id":"GO:0006633","count":4},{"id":"GO:0008206","count":4}]},{"hash":"637996470185562073","title":"Insect neuro-metabolic signaling and cuticle pigmentation","description":"The cluster centers on neuronal signaling and metabolism: calcium-mediated signaling, serotonin and GABA biosynthesis, circadian rhythm, and thermotaxis, with additional links to Notch signaling and chitin-containing cuticle pigmentation. The presence of L-alanine and L-kynurenine catabolic processes ties in metabolic activity that could modulate neural and developmental pathways in insects, reinforcing a theme of coordinated neuro/metabolic control over daily rhythms and pigment-related cuticle biology. Confidence: Medium","confidence":"","size":17,"edges":28,"triangles":37,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0048082","count":4},{"id":"GO:0048085","count":4}]},{"hash":"618448837051030291","title":"Mitochondrial metabolism and signaling","description":"The cluster shows enrichment for mitochondrial translation and fatty acid catabolic processes, alongside ER organization and tRNA biosynthesis, plus cell cycle and circadian rhythm terms, and several signaling pathways (Notch, TRAIL-mediated apoptosis, tyrosine dephosphorylation). This pattern suggests a core of mitochondrial-associated metabolism with links to broader cellular signaling and cycle regulation, rather than a single isolated pathway. ","confidence":"Medium","size":17,"edges":15,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":5},{"id":"GO:0007029","count":4},{"id":"GO:0009062","count":4},{"id":"GO:0019876","count":4},{"id":"GO:0070681","count":4}]},{"hash":"1835024591657503696","title":"Cell-cycle and kinase signaling regulators","description":"These proteins show strong enrichment for negative regulation of kinase activity (CDK, ERK/MAPK) and cell cycle processes, along with modulation of Notch and T cell receptor signaling, plus related stress responses (osmotic stress) and autophagy. The common thread is regulation of signaling pathways that govern cell cycle progression and cellular responses, rather than a single structural or metabolic function.","confidence":"High","size":17,"edges":60,"triangles":157,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":8},{"id":"GO:0045736","count":8},{"id":"GO:0050860","count":8},{"id":"GO:0070373","count":8},{"id":"GO:0000200","count":8}]},{"hash":"1264577618940737128","title":"Circadian Neural Signaling and Sensory-Drug Responses","description":"The terms cluster around neural signaling and sensory functions (excitatory postsynaptic potentials, Ca2+/K+ transport, startle response, sound/optic nerve associations) and include responses to ethanol and cocaine, plus circadian sleep regulation, pointing to a coherent theme of circadian neural signaling and sensory/drug responsiveness.","confidence":"High","size":17,"edges":43,"triangles":61,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071361","count":7},{"id":"GO:0021631","count":7},{"id":"GO:1901214","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0042220","count":7}]},{"hash":"1322113800461502783","title":"Embryogenesis and Mesoderm Patterning","description":"The top GO terms are dominated by embryonic development and lineage specification, including mesoderm development, left/right patterning, cartilage morphogenesis, and endocrine system development, indicating a developmental program rather than a single pathway. A splicing term appears as a general cellular process but does not redefine the cluster\u2019s theme. So a label centered on embryogenesis and mesoderm patterning fits best.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":12},{"id":"GO:0060021","count":12},{"id":"GO:0010957","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060806","count":12}]},{"hash":"1526077049626634613","title":"Translation Machinery with Developmental Roles","description":"Dominant GO terms are translation-related (cytoplasmic translation, translation, threonyl-tRNA aminoacylation), pointing to a core role in protein synthesis. The cluster also includes multiple tissue-development terms (nervous system, cerebral cortex, skeletal muscle, heart development), suggesting these translation-related proteins participate in developmental processes of nervous and muscular tissues. Therefore, the label reflects both the primary function and the developmental context observed in this cluster.","confidence":"High","size":17,"edges":119,"triangles":461,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007519","count":2}]},{"hash":"2102424537082461986","title":"Multi-tissue development","description":"The top GO terms span retina, bone, kidney, and cartilage development, plus general processes like receptor internalization and protein tetramerization, indicating roles in developmental differentiation across multiple tissues rather than a single pathway. So a Multi-tissue development label is the best fit.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0002076","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0031623","count":3}]},{"hash":"645024440694877434","title":"Sphingolipid metabolism and inflammatory signaling","description":"Top GO terms indicate a consistent theme of sphingolipid biosynthesis and metabolism (phytosphingosine and dihydrosphingosine-1-P pathways) together with inflammatory signaling (TNF, IL-1\u03b2) and inflammatory responses. The presence of dormancy entry of symbiont in host and stress response terms suggests a context of host\u2013microbe interactions where lipid signaling modulates immune responses. Together these terms point to a cluster centered on sphingolipid metabolism integrated with immune/inflammatory regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0085014","count":3},{"id":"GO:0006950","count":3},{"id":"GO:0006671","count":3},{"id":"GO:0048146","count":3},{"id":"GO:0032651","count":3}]},{"hash":"1105428986103692227","title":"Neural development, migration, and synaptic trafficking","description":"The top GO terms cluster around hippocampus development, various cortical and subventricular neural migrations, and synaptic vesicle budding, all pointing to neuronal development and movement. Additional terms on apical protein localization, phospholipid homeostasis, and lysosomal membrane organization suggest neuronal trafficking and membrane/organelle organization, while Smoothened signaling links to developmental pathways shaping neural patterning. Overall, this cluster appears to reflect neuronal development with migration and synaptic transport components.","confidence":"Medium","size":17,"edges":11,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045176","count":4},{"id":"GO:0007224","count":4},{"id":"GO:0043525","count":4},{"id":"GO:0010628","count":4},{"id":"GO:0021766","count":4}]},{"hash":"1413512437079971600","title":"Diverse metabolic catabolism and biosynthesis","description":"This cluster's top GO terms cover a wide range of catabolic and biosynthetic processes across various metabolite classes (lipids, plant compounds, vitamins, pigments) and even include regulation of endocannabinoid signaling, suggesting a general metabolic-processing theme rather than a single specific pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2000124","count":5},{"id":"GO:0019433","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0017000","count":5}]},{"hash":"132672054264631402","title":"Vesicle trafficking and cytoskeleton assembly","description":"The top terms emphasize intracellular transport processes (endocytosis, ER-to-Golgi vesicle transport, protein targeting to vacuole) and cytoskeletal organization (tubulin complex assembly). While there are some organ-development terms present, the strongest signal is cellular trafficking and microtubule/cytoskeletal activity, justifying this label.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072205","count":2},{"id":"GO:2000171","count":2},{"id":"GO:0042994","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0001822","count":2}]},{"hash":"419396642610982493","title":"Podosome Assembly and Integrin Signaling","description":"This cluster centers on podosome assembly and its regulation, with notable mentions of integrin-mediated signaling, GTPase activity regulation, and actin-driven ruffle formation. The explicit presence of GO terms for podosome assembly and its positive regulation strongly supports a role in actin cytoskeleton remodeling at adhesion sites, linking cell adhesion to migration. Broader terms like TGF-beta response and organ morphogenesis provide context but do not override the podosome-centered theme.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0070830","count":3},{"id":"GO:0051660","count":3},{"id":"GO:0071800","count":3}]},{"hash":"1391109238815457979","title":"Craniofacial and vascular development","description":"The top GO terms point to palate (roof of mouth) development, midbrain development, endothelial barrier establishment, smooth muscle cell migration, and blood coagulation, all of which center on craniofacial and vascular development and remodeling. While some terms reflect general cellular processes (transcription regulation, splicing, ribosomal export) they do not negate the dominant developmental/vascular theme. Overall, the cluster seems to represent proteins involved in developmental processes affecting craniofacial and vascular systems.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:1903142","count":5},{"id":"GO:0014909","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0000122","count":4}]},{"hash":"2014369609041386811","title":"Embryogenesis and Organogenesis","description":"These proteins are enriched for developmental processes: endocrine system development, cartilage morphogenesis, left-right pattern formation, endocardial cushion EMT, placental/trophoblast differentiation, and related organogenesis themes, suggesting a developmental/tissue-formation role for the cluster (with some general transcripts/splicing processes providing a broad gene-expression context). Confidence: Medium","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":11},{"id":"GO:0035270","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0003323","count":11}]},{"hash":"369719251377547763","title":"Ciliogenesis and Mitosis Machinery","description":"The cluster centers on cilium assembly and cell division processes, including mitotic sister chromatid cohesion and Arp2/3-mediated actin nucleation, implying a shared role in ciliary construction and cytoskeletal rearrangements during division. Protein homooligomerization and spliceosome-mediated mRNA splicing appear as supportive processes, while a few terms (neuronal projection development, growth hormone response, nutrient response) may reflect broader cellular context rather than core cluster function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060271","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007584","count":3}]},{"hash":"2248796707469871894","title":"Inflammatory cell migration and cytoskeletal dynamics","description":"The cluster centers on neutrophil chemotaxis and actin-driven structures (lamellipodium/microspike assembly), with associated inflammatory signaling (TNF pathway, muramyl dipeptide response) and adhesion/vascular remodeling terms, suggesting a cohesive theme of immune cell movement and cytoskeletal remodeling in inflammation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0071225","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0043552","count":2}]},{"hash":"667262958471934700","title":"GTPase-driven signaling and cytoskeletal remodeling","description":"The top GO terms cluster around activation/regulation of GTPases, lamellipodium and synapse assembly, and growth signaling (TORC1, insulin). Immune-response terms are present but less central, suggesting the core theme is GTPase-mediated signaling that coordinates cytoskeletal dynamics and developmental processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0002250","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0045792","count":2}]},{"hash":"668175812468619285","title":"Circadian Sleep Regulation and Neuronal Signaling","description":"This cluster centers on GO terms for sleep, rhythmic processes, regulation of circadian sleep/wake cycles, and cholinergic/voltage-gated potassium channel activity, indicating proteins involved in circadian neural control and sleep-related neuronal excitability. Additional terms for memory and startle support broader neural functions, but the dominant theme is circadian sleep regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030431","count":2},{"id":"GO:1903049","count":2},{"id":"GO:0048511","count":2},{"id":"GO:0032222","count":2},{"id":"GO:0045187","count":2}]},{"hash":"2187953656267239720","title":"Cell cycle regulation and transcription","description":"Most top GO terms cluster around DNA-templated transcription and mitotic cell cycle processes (including G1/S transition and re-entry into mitosis), with supporting signals from mRNA processing and transcriptional control. A few terms touch on immune response and GPCR signaling, but the dominant theme is cell-cycle\u2013linked transcriptional regulation. This suggests the proteins collectively participate in controlling cell cycle progression and transcriptional regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0006397","count":4}]},{"hash":"1163214333708372048","title":"Calcium-Driven Signaling and Metabolic Stress Response","description":"GO terms show GPCR/cAMP signaling, calcium release, inflammation, pain perception, thermogenesis, and mitochondrial energy metabolism, with retina development hinting at tissue-specific signaling. This points to a cohesive theme of calcium- and GPCR-mediated signaling integrated with metabolic and stress responses.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0022900","count":5},{"id":"GO:0051209","count":5},{"id":"GO:0051281","count":4}]},{"hash":"2146201947595900460","title":"Cardiac Development and GPCR-Mediated Contraction","description":"The terms point to heart development and cardiac muscle contraction, with supporting roles for GPCR signaling and Rho pathway regulation, suggesting a cluster of proteins involved in cardiac muscle function and its signaling networks.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0018107","count":2},{"id":"GO:0060048","count":2}]},{"hash":"805866936277690459","title":"Bacteria-host entry and endocytic signaling","description":"The top GO terms indicate processes related to bacteria entering host cells (symbiont entry, defense against bacterium) and intracellular trafficking/reactive signaling (clathrin-dependent endocytosis, GPCR internalization, ERK/Rho signaling, serine phosphorylation). This points to a theme of how host cells facilitate or respond to bacterial entry and coordinate downstream endocytic and signaling pathways, with some neuronal signaling terms likely reflecting shared signaling components. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1887420687243647631","title":"Membrane Transporters","description":"This cluster is enriched for GO terms related to transport across membranes (sodium, xenobiotic, sialic acid, vitamin, and hydroxyphenylacetate transport) and processes like neurotransmitter loading and mitochondrial ion homeostasis, suggesting a shared function in membrane transport. The spliceosome-related term is present but does not define the overall theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051560","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1520917746242314791","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0090502","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0009970","count":1},{"id":"GO:0019379","count":1}]},{"hash":"475233990803027041","title":"Cytoskeleton Organization and Endosomal Transport","description":"The top GO terms emphasize cytoskeletal dynamics (microtubule and actin organization, sarcomere organization, centrosome-associated anchoring) and vesicular trafficking (endosome organization and endosome-to-endosome transport), indicating a cluster centered on cytoskeletal regulation governing intracellular transport and endomembrane trafficking. Protein homooligomerization may reflect assembly of structural complexes. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0014070","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0031648","count":1},{"id":"GO:0031122","count":1}]},{"hash":"814540495494065393","title":"Nutrient starvation and mitochondrial stress response","description":"The GO terms point to cellular responses to various nutrient deprivations (glucose, leucine, histidine) and stress conditions, plus mitochondrial complex IV assembly and regulation of protein sumoylation and DNA damage checkpoints. This suggests a cohesive theme where proteins participate in stress signaling linked to energy/nutrient status with mitochondrial maintenance, rather than a single, narrow function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0042149","count":1},{"id":"GO:0072755","count":1},{"id":"GO:1990253","count":1},{"id":"GO:0031333","count":1}]},{"hash":"1461469290205154554","title":"Paranodal junction assembly and nervous system development","description":"This cluster\u2019s top GO terms cluster around the paranodal region of axons and nervous system development, including paranodal junction assembly, protein localization to paranode region of axon, and synapse-related terms, with several entries also linked to broader neural development. While there are some terms pointing to other tissues (skeletal system, immune signaling), the strongest signals point to neural paranodal organization and development, justifying a neural-focused name.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0001501","count":4}]},{"hash":"2263918960076184752","title":"Protein Catabolism and Nitrogen Metabolism","description":"These proteins show enrichment for proteolysis and peptide catabolic processes, as well as pathways tied to purine degradation and ureide/ allantoin metabolism, plus arginine biosynthesis, suggesting a theme of turnover and recycling of nitrogenous compounds. Some obsolete lysine biosynthesis terms and the membrane hyperpolarization term are less central artifacts. Overall, the cluster seems to reflect protein and nitrogen compound catabolism rather than a single biosynthetic route.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0060081","count":3},{"id":"GO:0006144","count":2},{"id":"GO:0019877","count":2},{"id":"GO:0019878","count":2}]},{"hash":"1373444270815509937","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":44,"triangles":64,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0006369","count":3}]},{"hash":"1481846841663556892","title":"Telomere Chromatin Maintenance","description":"The top GO terms cluster around subtelomeric heterochromatin formation, telomere silencing, and related chromatin regulation, alongside DNA replication and UV-damage repair, suggesting a cohesive role in maintaining telomeric chromatin structure while coordinating replication and repair processes. Some metabolic or signaling terms present may be incidental noise, but the dominant signal supports telomere-associated chromatin maintenance.","confidence":"Medium","size":16,"edges":12,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0010125","count":2},{"id":"GO:0031939","count":2},{"id":"GO:0006271","count":2}]},{"hash":"1329061561361303177","title":"Neuronal migration and brain development","description":"The cluster is dominated by GO terms tied to neural development and neuronal migration, including substantia nigra development and multiple migration processes (tangential migration to the olfactory bulb, cortical radial migration, and interneuron precursor migration). While translation and gene expression regulation appear as general cellular processes, the prominent brain-structure\u2013 and neuron-migration\u2013related terms point to a cohesive theme of neural development and neuronal positioning. ","confidence":"High","size":16,"edges":15,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":8},{"id":"GO:0000001","count":8},{"id":"GO:0021762","count":8},{"id":"GO:0071963","count":8},{"id":"GO:0030225","count":7}]},{"hash":"2207905619309793803","title":"Skeletal and neural development","description":"The cluster is enriched for embryonic skeletal/bone/cartilage formation terms (mesoderm formation, chondrocyte differentiation, cartilage development, cranial skeleton morphogenesis) and neural lineage terms (Schwann cell development, excitatory postsynaptic potential), with additional DNA replication/transcription signals typical of proliferative developmental cells; together these terms suggest a program integrating skeletal morphogenesis with neural differentiation.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0002062","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0010614","count":5},{"id":"GO:0048701","count":5}]},{"hash":"2008860784855718131","title":"Neural development and potassium transport","description":"This cluster most strongly maps to neural development signals, with forebrain development and general multicellular development terms, and is complemented by positive regulation of Wnt signaling \u2014 a pathway central to development. It also includes potassium ion transport and homeostasis terms, suggesting a link to neuronal ion balance. Some terms (innate immune response, cadmium ion response) are less clearly connected, possibly reflecting annotation overlap. Overall, the data point toward a theme of neural development intertwined with ion transport/homeostasis.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0097623","count":3},{"id":"GO:0030007","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000278","count":3}]},{"hash":"545299076177787934","title":"Embryonic Development and Morphogenesis","description":"This cluster centers on vertebrate embryogenesis and organ morphogenesis, with terms for mesoderm development, cartilage and palate morphogenesis, hair follicle formation, and endocardial EMT, suggesting roles in tissue differentiation and organ formation. The spliceosome term appears incidental but not contradictory.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0010957","count":7},{"id":"GO:0035270","count":7},{"id":"GO:0031069","count":7},{"id":"GO:0003198","count":7}]},{"hash":"811623712398116145","title":"Spliceosome and RNA Processing Proteins","description":"This cluster is dominated by GO terms for mRNA splicing via the spliceosome, including regulatory and core splicing steps, plus related RNA processing activities such as transcription termination and rRNA maturation. These recurring themes indicate a cohesive group of proteins involved in RNA processing and splicing machinery, with a few outliers likely due to annotation noise.","confidence":"High","size":16,"edges":102,"triangles":386,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":8},{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0045292","count":6},{"id":"GO:0000398","count":5}]},{"hash":"2298060446098439917","title":"Ciliary/Photoreceptor Assembly and Localization","description":"Most of the top GO terms cluster around cilium-related processes and photoreceptor biology: non-motile cilium assembly, retinal rod cell development, and protein localization to the photoreceptor outer segment, suggesting the proteins share a role in ciliary/photoreceptor assembly and trafficking. Some terms are unrelated (virus defense, lead ion response, snoRNP assembly), which may reflect multifunctional proteins or broader annotations, but the dominant theme supports cilia and photoreceptor function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905515","count":5},{"id":"GO:1903071","count":4},{"id":"GO:0046548","count":4},{"id":"GO:0003085","count":4},{"id":"GO:0070389","count":4}]},{"hash":"1726379409518443510","title":"Glycine transport and glycinergic neurotransmission","description":"This cluster centers on glycine handling and glycinergic synaptic signaling in neurons, with top GO terms for glycine transport/import and glycinergic transmission, plus regulatory aspects of glycinergic signaling and related amino acid transport. The inclusion of taurine, leucine, and proline transport supports a broader theme of neuronal amino acid transport, and thalamus development suggests a brain-specific context for glycinergic signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0015734","count":3},{"id":"GO:0051610","count":3},{"id":"GO:1903346","count":3},{"id":"GO:0061537","count":3},{"id":"GO:0021794","count":3}]},{"hash":"162663417500961911","title":"Epithelial morphogenesis and cell migration","description":"The main terms indicate epithelial development (hair follicle morphogenesis, keratinization, epithelial cell-cell adhesion) and cytoskeletal remodeling/cell migration (stress fiber assembly, substrate adhesion-dependent spreading, dendrite morphogenesis, hemocyte migration). While there are hints of mitochondrial distribution and nervous system development, the dominant theme ties to epithelial morphogenesis and migration during development.","confidence":"Medium","size":16,"edges":10,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035099","count":7},{"id":"GO:0031069","count":7},{"id":"GO:0048312","count":6},{"id":"GO:0048813","count":6},{"id":"GO:0038027","count":6}]},{"hash":"257683863181246452","title":"Embryonic development and morphogenesis","description":"Top GO terms are dominated by embryonic development and morphogenesis (mesoderm development, hair follicle morphogenesis, cartilage morphogenesis, roof of mouth development, endocardial cushion EMT, endocrine system and pancreatic cell development). The spliceosome term is a general cellular process, but the overall pattern points to developmental differentiation and tissue shaping. Therefore, the cluster is best described as Embryonic development and morphogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":16},{"id":"GO:0010957","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0031069","count":16},{"id":"GO:0003198","count":16}]},{"hash":"706692132295773278","title":"Rac-regulated actin remodeling and spine formation","description":"The top GO terms indicate activation of actin polymerization and lamellipodium/ruffle assembly (actin dynamics) regulated by Rac signaling, with links to dendritic spine development and synaptic vesicle exocytosis, suggesting a cohesive role in cytoskeleton-driven spine morphology and associated membrane trafficking. This points to a specific, cohesive function rather than disparate processes.","confidence":"High","size":16,"edges":57,"triangles":61,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051496","count":6},{"id":"GO:0045792","count":6},{"id":"GO:2000300","count":5},{"id":"GO:0030838","count":5},{"id":"GO:0090338","count":5}]},{"hash":"1808764468132834278","title":"Oxidative Stress and Mitochondrial Apoptosis","description":"This cluster is best described as enriched for oxidative stress response and mitochondria-associated apoptotic processes. The top GO terms include responses to reactive oxygen species (superoxide, hydrogen peroxide) and metals (cadmium, arsenic), plus regulation of mitochondrial depolarization and apoptotic mitochondrial changes, and proteasomal protein catabolic processes that can be tied to stress adaptation. The connection across these terms points to a set of proteins that participate in redox biology and mitochondria-driven cell fate decisions under toxic or oxidative conditions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000490","count":1},{"id":"GO:0000303","count":1},{"id":"GO:0071372","count":1},{"id":"GO:0019852","count":1},{"id":"GO:0046685","count":1}]},{"hash":"774636433748155586","title":"Fat cell differentiation and gene regulation","description":"The cluster centers on regulatory processes: adipocyte (fat cell) differentiation is the top term, supported by strong signals for protein ubiquitination, mRNA processing, and negative regulation of CDK activity, plus links to telomere maintenance and cell signaling (cell migration, synaptic plasticity). This suggests a cohesive theme around differentiation-related programs intertwined with gene expression and genome stability regulation, rather than a single pathway. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":9},{"id":"GO:0016567","count":8},{"id":"GO:0006397","count":8},{"id":"GO:1904355","count":8},{"id":"GO:2001275","count":8}]},{"hash":"839311078136204274","title":"Developmental signaling and morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes (forebrain development, branching morphogenesis, angiogenesis) and signaling pathways (Wnt, integrin-mediated signaling), with associated cell migration. This suggests proteins involved in developmental signaling that drive tissue morphogenesis and movement, despite some peripheral terms like apoptosis or mRNA processing.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0060444","count":3},{"id":"GO:0060044","count":3}]},{"hash":"197849418225643482","title":"ER-Golgi vesicle trafficking","description":"The dominant GO terms point to endomembrane transport between the endoplasmic reticulum and Golgi (anterograde and retrograde), including the CVT pathway from cytoplasm to vacuole. This pattern indicates vesicle trafficking within the secretory pathway as the core function of this cluster. Although a few terms touch on meiosis, differentiation, and ubiquitination, they are less central to the major shared theme of intracellular vesicle transport. Therefore, naming it ER-Golgi vesicle trafficking captures the primary signal from the data. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0009860","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0007112","count":2}]},{"hash":"1295738885220574734","title":"Calcium-Dependent Synaptic Signaling","description":"The terms converge on calcium sensing (detection of calcium ion), regulation of synaptic vesicle exocytosis, excitatory postsynaptic potential, and calcium-modulated Wnt signaling, all central to calcium-driven neuronal communication and memory. A muscle development term is present but secondary to the dominant calcium\u2013synapse theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0035690","count":2},{"id":"GO:1905205","count":1},{"id":"GO:0007616","count":1},{"id":"GO:2000300","count":1}]},{"hash":"180224489542666282","title":"RNA processing and translation initiation","description":"This cluster is dominated by GO terms for RNA processing (mRNA splicing and rRNA maturation) and translation initiation/reinitiation, indicating a core theme around post-transcriptional processing and the start of protein synthesis. A few terms point to cytoskeletal or developmental roles, but the strongest signal centers on RNA processing and translational control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4}]},{"hash":"1304988583771420838","title":"Actin nucleation and cytoskeleton regulation","description":"Top GO terms cluster around actin dynamics, especially positive regulation of Arp2/3 complex-mediated actin nucleation, and actin filament organization, with supporting terms for endocytosis and cortical patch assembly. This points to a common function in cytoskeleton remodeling. A few terms (splicing, Golgi regulation, bud site selection) appear less central and may reflect broader multifunctionality of the proteins, but do not override the actin-focused theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0060733","count":2},{"id":"GO:0035023","count":1}]},{"hash":"1687103376011304166","title":"Embryonic development and morphogenesis","description":"The proteins cluster around developmental and tissue-forming processes, including mesoderm development, palate/roof of mouth formation, cartilage and hair follicle morphogenesis, and EMT in heart cushion formation, plus endocrine system and pancreatic cell development. A spliceosome-mediated mRNA processing term is a general cellular function that can appear across many proteins and does not negate the developmental theme. Overall, the shared functions point to embryonic morphogenesis and organ development as the core theme of this cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":16},{"id":"GO:0010957","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0031069","count":16},{"id":"GO:0003198","count":16}]},{"hash":"634195183020839921","title":"Embryonic Morphogenesis and Development","description":"The top GO terms cluster around embryonic development and tissue morphogenesis across several lineages (left-right patterning; palatal and cartilage morphogenesis; hair follicle morphogenesis; endothelial-to-mesenchymal transition in heart development; placenta and endocrine system development). One term on mRNA splicing is a general cellular process and not specific to morphogenesis, but the dominant theme is embryonic tissue formation and patterning.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":16},{"id":"GO:0010957","count":16},{"id":"GO:0060972","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060021","count":16}]},{"hash":"1040988017980676417","title":"RNA processing and ribosome biogenesis","description":"The top GO terms show a strong RNA-centric theme: translation, rRNA processing (ITS1 cleavage), and mRNA export, pointing to roles in ribosome assembly and protein synthesis. A few cell-cycle terms are present but less prominent, suggesting they are secondary associations rather than the cluster\u2019s main function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000447","count":2},{"id":"GO:0016973","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0046599","count":1}]},{"hash":"1476919292969097253","title":"ECM remodeling and skeletogenesis","description":"These GO terms cluster around extracellular matrix dynamics and skeletal tissue formation: collagen catabolic processes, cartilage development in endochondral bone morphogenesis, and intramembranous ossification, with supporting signals from endothelial proliferation and skin development. The combination points to ECM remodeling driving bone/cartilage formation, with some vascular/immune context layered in. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0030574","count":2}]},{"hash":"2055206774342892680","title":"Embryonic Development and Morphogenesis","description":"Most GO terms point to embryogenesis and organ morphogenesis (endocrine system development; left-right pattern formation; endocardial cushion formation; cartilage morphogenesis; pancreatic cell development; placental and trophoblast differentiation). A couple of non-developmental terms (GABA transport, arginine catabolism) are minimal and not defining the cluster. Therefore this label best captures the predominant theme of the proteins\u2019 functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1095667609668412088","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including endocrine system development, pancreas B-cell development, placenta/trophoblast differentiation, left\u2013right patterning, cartilage and hair follicle morphogenesis, and epithelial-to-mesenchymal transitions in heart/embryonic structures. The common thread is regulation of development and morphogenetic processes, indicating these proteins participate in early development and organ patterning rather than a single tissue function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060972","count":12},{"id":"GO:0035270","count":12},{"id":"GO:0060536","count":12}]},{"hash":"105850205252859828","title":"Ubiquitin-dependent NF-\u03baB signaling in antiviral immunity","description":"This cluster is dominated by GO terms related to ubiquitination types (K63-, K6-, and linear polyubiquitination) and autoubiquitination, as well as regulation of canonical NF-\u03baB signaling and TNF pathways, alongside defense and innate immune responses to virus. Together, these terms suggest a cohesive role in ubiquitin-mediated control of inflammatory signaling during antiviral innate immunity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0060546","count":8},{"id":"GO:0043123","count":8},{"id":"GO:0070534","count":7},{"id":"GO:0051865","count":7}]},{"hash":"2212828712142285023","title":"Apoptosis and Autophagy Regulation","description":"This cluster's GO terms cluster around cell fate decisions under stress, including apoptotic processes and regulation of JNK signaling, plus autophagy-related localization to autophagosomes and ubiquitination. While some terms are diverse, the recurring theme is regulation of apoptosis and autophagy in response to cellular stress, justifying the label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0014809","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0060393","count":1}]},{"hash":"381141343472589253","title":"Gi-Coupled GPCR Signaling in Cardiovascular Function","description":"This cluster is dominated by GO terms describing GPCR signaling that inhibits adenylate cyclase (Gi pathways) and modulates cardiovascular physiology, including vasoconstriction, heart rate regulation by catecholamines, and kidney blood-flow regulation via the renin-angiotensin system; additional terms reflect related GPCR cross-talk and signaling in sensory/thermogenic contexts. The common theme is Gi-coupled GPCR signaling influencing cardiovascular and related physiological processes, with some related signs in photoreceptor/thermogenic pathways.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003093","count":14},{"id":"GO:0045907","count":14},{"id":"GO:0031649","count":14},{"id":"GO:0016038","count":14},{"id":"GO:1900453","count":14}]},{"hash":"2011188293482915425","title":"Embryonic Development and Organ Morphogenesis","description":"GO terms point to embryonic development and organ morphogenesis across heart, vasculature, retina, and bone, with Notch signaling, kinase activity regulation, and environmental responses; the lack of a single dominant pathway suggests a broad developmental role.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":7},{"id":"GO:0003213","count":5},{"id":"GO:0003270","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0060843","count":5}]},{"hash":"1798085053874604017","title":"Mast cell activation and immune signaling","description":"These proteins show recurring themes around mast cell proliferation regulation, IL-4 production, adaptive immune response, and modulation of TLR2 signaling, along with phagocytosis and cytoskeletal remodeling (lamellipodium assembly) linked to cell migration. Together they point to a coordinated mast cell\u2013driven immune activation program incorporating both innate and adaptive aspects. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0070667","count":2},{"id":"GO:0070668","count":2},{"id":"GO:0034136","count":2}]},{"hash":"677003082740411841","title":"Membrane Trafficking and Signaling Regulation","description":"Proteins in this cluster show enrichment for terms related to regulation of transport between the plasma membrane and endosomes, regulation of protein localization to the cell surface, and various signaling pathways (TNF, hypoxia-related). This suggests a shared role in modulating membrane trafficking and surface signaling, with a few terms like DNA replication and translation likely representing broader or multifunctional annotations. Overall, the theme is regulation of membrane trafficking and signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:1902306","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048227","count":2},{"id":"GO:1902072","count":2}]},{"hash":"652339229241669350","title":"Secretory vesicle trafficking and cytokine production","description":"The terms cluster around secretory granule localization and synaptic vesicle maturation, pointing to vesicle trafficking and secretion. Additionally, positive regulation of cytokine production (IL-4 and type II IFN) indicates secretion of immune signaling molecules via these pathways, with polarity establishment fitting polarized secretory cells and lipid signaling (diacylglycerol) modulating secretion. Together, these suggest a cohesive role in secretory vesicle\u2013mediated signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032252","count":2},{"id":"GO:0016332","count":2},{"id":"GO:0032753","count":2},{"id":"GO:0023021","count":2},{"id":"GO:0010957","count":2}]},{"hash":"889342363794296033","title":"Developmental morphogenesis and RNA processing","description":"The cluster includes GO terms tied to developmental processes (left-right pattern formation; endocardial cushion EMT; roof of mouth development; hair follicle morphogenesis; endocrine system development; trophoblast giant cell differentiation) as well as RNA processing activities (mRNA splicing, ribosomal large subunit export). This suggests a shared theme of gene expression regulation guiding development across multiple tissues, rather than a single pathway or tissue. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":13},{"id":"GO:0000398","count":13},{"id":"GO:0010957","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0003198","count":13}]},{"hash":"2016255810884916904","title":"Epithelial junctions and morphogenesis","description":"The top terms cluster around adherens junction assembly, limb joint morphogenesis, Wnt signaling involved in negative regulation of apoptosis, and maintenance of organ identity, which together point to epithelial cell adhesion and developmental morphogenesis as the core theme. Additional terms such as nuclear import and GTPase regulation appear ancillary, but do not override the developmental adhesion signal.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0015991","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0045110","count":4},{"id":"GO:0048496","count":4}]},{"hash":"302526031880671754","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune signaling (NF-kappaB regulation), various signal transduction pathways (ERK cascade, PI biosynthesis), neuronal processes (dopamine uptake), metabolism (alanine catabolism, lysine biosynthesis via aminoadipic acid), development (liver), translation, and proliferation. There is no single dominant biological theme or pathway uniting these proteins, and the cluster shows low connectivity, supporting an Unknown label.","confidence":"","size":15,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0001889","count":3}]},{"hash":"1266315349220304283","title":"Muscle and nerve development with cell cycle activity","description":"The cluster is enriched for muscle and neural development terms (myoblast fusion, Schwann cell development, excitatory signaling, response to muscle activity) along with core cell-cycle processes (DNA replication, G2/M transition, mitotic cycle) and morphogenesis, indicating a cohesive theme of muscle/nerve development intertwined with cell division. ","confidence":"Medium","size":15,"edges":49,"triangles":76,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":11},{"id":"GO:0006260","count":11},{"id":"GO:0014044","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0007520","count":7}]},{"hash":"2208061008958712597","title":"Actin Cytoskeleton Remodeling & Trafficking","description":"The cluster is dominated by actin-related processes (sarcomere organization, skeletal muscle adaptation, Arp2/3-mediated actin nucleation) along with endocytosis regulation and trafficking, suggesting a common theme of actin cytoskeleton remodeling linked to membrane trafficking; a few cell-cycle terms are less central.","confidence":"High","size":15,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":4},{"id":"GO:0043503","count":3},{"id":"GO:0070527","count":3},{"id":"GO:0034314","count":2},{"id":"GO:0010628","count":2}]},{"hash":"815306641853589874","title":"Protein Translation and Cell Division","description":"This cluster centers on translation (cytoplasmic and mitochondrial) and related ribosome assembly processes, with secondary hints of translation fidelity regulation and cell-cycle\u2013related proliferation, suggesting a role in protein synthesis linked to cell growth and division.","confidence":"Medium","size":15,"edges":14,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0008283","count":2},{"id":"GO:0006893","count":2}]},{"hash":"474237800378456673","title":"DNA Replication and Repair","description":"The cluster is driven by GO terms for base-excision repair, DNA recombination, and DNA replication, pointing to a core DNA maintenance function. Other terms like Notch signaling, blastocyst development, and metabolic/tRNA processes are likely ancillary or pleiotropic.","confidence":"High","size":15,"edges":13,"triangles":0,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0001824","count":2}]},{"hash":"1629033740042259985","title":"Rho/Ras GTPase signaling and actin dynamics","description":"The top GO terms converge on regulation of Rho and Ras signaling, GTPase activity, and actin cytoskeleton organization, with links to cell polarity (bud site selection) and neuronal dendrite extension and membrane remodeling. This points to a coherent module of GTPase-driven actin remodeling and polarization.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:1903861","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0007120","count":2},{"id":"GO:0007015","count":2}]},{"hash":"1153090386727503087","title":"Glycinergic neurotransmission and amino acid transport","description":"This cluster's top GO terms center on glycine-related functions: glycine import, glycine secretion for neurotransmission, and regulation of glycinergic synaptic transmission, supported by broader amino acid transport terms (taurine, leucine, proline). The combination points to proteins involved in amino acid transport with a focus on glycinergic signaling at synapses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036233","count":5},{"id":"GO:0015734","count":4},{"id":"GO:0051610","count":4},{"id":"GO:1903346","count":4},{"id":"GO:0061537","count":4}]},{"hash":"1783886518522053150","title":"Diverse Biosynthetic Pathways","description":"This cluster is dominated by GO terms describing the biosynthesis of varied metabolites (antibiotics, vitamins like biotin and ubiquinone, lipids such as sterols, hormones like juvenile hormone, and polyamines). Despite a couple outlier terms related to stress responses, the common thread is synthesis of diverse small-molecule metabolites, suggesting a label around broad biosynthetic activity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0009234","count":3},{"id":"GO:0006718","count":3},{"id":"GO:0016126","count":3}]},{"hash":"905031071538742641","title":"Craniofacial and mesodermal morphogenesis","description":"Dominant signals point to morphogenesis of craniofacial and mesoderm-derived tissues: cartilage, palate (roof of mouth), hair follicles, and heart-associated EMT; several terms also note broader mesodermal development. A couple of RNA processing terms appear as background cellular processes, but the main theme is developmental morphogenesis in facial/mesodermal lineages.","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":12},{"id":"GO:0000398","count":12},{"id":"GO:0010957","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0035270","count":12}]},{"hash":"25010167972847304","title":"Neural signaling and brain development","description":"The terms point strongly to neural function: sensory perception of sound, locomotory behavior, excitatory postsynaptic potentials, membrane depolarization, and sodium/potassium ion transport, all of which reflect neuronal signaling and excitability. Additional terms about neuron projection and brain development support a neural development theme, with a few general development terms likely reflecting pleiotropic roles. This makes a neural-focused label most representative.","confidence":"Medium","size":15,"edges":13,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0051899","count":3}]},{"hash":"1349693863590646845","title":"Neural Development and Cell-Cell Adhesion","description":"The cluster is driven by neural-related terms: brain and nervous system development, neuronal stem cell maintenance, and both homophilic and heterophilic cell\u2013cell adhesion, indicating coordinated neural differentiation and tissue organization. While there are some terms on ossification and equator specification, the predominant signals point to neural development and adhesion molecules as the core theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0048839","count":8},{"id":"GO:0007626","count":8},{"id":"GO:0007156","count":8}]},{"hash":"1703818078321947127","title":"Neuronal mRNA Regulation and Synaptic Function","description":"The top GO terms show a clear emphasis on neuronal processes: regulation of synaptic plasticity and dendrite development, and regulation of SNARE complex assembly, together with mRNA processing and mRNA stability. This suggests a cluster centered on how neurons control gene expression to modulate synaptic function. A few terms are developmental or telomere-related, which might reflect broad roles of some shared proteins, but the dominant signal is neuronal RNA regulation linked to synaptic activity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0010845","count":4},{"id":"GO:1904743","count":4},{"id":"GO:2000171","count":4}]},{"hash":"356038358598617583","title":"Embryonic development and organ morphogenesis","description":"The top GO terms center on embryogenesis and tissue formation (mesoderm development, left/right patterning, cartilage morphogenesis, roof of mouth development, endocrine system development), suggesting the proteins participate in developmental programs and organogenesis; a single spliceosome term is less explanatory but does not outweigh the overarching theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0035270","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7}]},{"hash":"2257252814816639498","title":"Developmental gene regulation and morphogenesis","description":"The cluster shows enrichment for development-related GO terms across multiple tissues (brain, spinal cord, skeletal, pancreatic development) along with core gene-expression processes (DNA-templated transcription, mRNA splicing). This points to a cohesive theme of developmental regulation guiding tissue morphogenesis.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0048705","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0001403","count":3}]},{"hash":"1287098568201125064","title":"Cell signaling and vesicle transport","description":"The top GO terms center on signaling pathways (GPCR-related signaling, ion transport regulation), cytoskeletal signaling (Rho), cell migration, and vesicle-mediated transport, with proteasome assembly also pointing to proteostasis\u2014all suggesting a general theme of intracellular signaling and protein trafficking rather than a single specialized function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0002344","count":2},{"id":"GO:0007507","count":2},{"id":"GO:2001275","count":2}]},{"hash":"2005870615841319737","title":"Vertebrate embryonic organ and eye development","description":"The top GO terms point to broad vertebrate development with emphasis on organogenesis, including heart development, embryonic/eye morphogenesis, forebrain development, and somitogenesis regulation, plus lymphangiogenesis. This suggests a cluster of proteins involved in embryonic organ formation and ocular/brain development. Some terms (complement activation, ERAD regulation) are less central and may reflect ancillary roles or annotation noise. Overall, the dominant theme is vertebrate embryonic organogenesis with a focus on eye development.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0001867","count":2},{"id":"GO:1901492","count":2}]},{"hash":"924778921375573015","title":"Muscle and Heart Development with Stress Response","description":"Top GO terms indicate both cardiac/skeletal muscle development and multiple cellular stress responses (UV, ethanol, DNA-damage mimetics) plus autophagy and regulatory processes, suggesting a cohesive group involved in muscle development intertwined with stress-response pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034644","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0030336","count":1},{"id":"GO:0000045","count":1}]},{"hash":"1531826247953421443","title":"Chromatin and Transcription Regulation","description":"This cluster shows strong signals for DNA-templated transcription and RNA polymerase II elongation, plus CENP-A chromatin assembly and histone modification, which together point to nuclear chromatin regulation of transcription, including centromeric chromatin. Other terms on protein catabolism and oxidative stress appear less central to the core theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0090296","count":1}]},{"hash":"2192094161604661432","title":"Unknown","description":"The cluster includes GO terms spanning mRNA processing, innate immune responses to lipopolysaccharide and dsRNA, dopamine signaling, adipocyte differentiation, apoptosis, and various signaling pathways (insulin, Rho) as well as telomere capping. There isn't a single coherent biological theme tying all terms together, indicating a diverse or mixed functional set rather than a specific module.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0031663","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0071222","count":3}]},{"hash":"668811392905333436","title":"Developmental patterning and organ morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis (endocrine system development, left-right pattern formation, cartilage morphogenesis, pancreatic cell development, endocardial cushion EMT), with additional RNA processing terms that are broadly required for gene expression. Overall, there is a coherent theme of developmental patterning and organ formation, justifying this label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":14},{"id":"GO:0000398","count":14},{"id":"GO:1903026","count":14},{"id":"GO:0035270","count":14},{"id":"GO:0003198","count":14}]},{"hash":"717667759963241508","title":"Unknown","description":"The GO terms for this cluster are highly diverse, including apoptosis regulation and process, spermatogenesis/biogenesis, mechanosensory behavior, immune response, autophagy-related Cvt pathway targeting, and responses to lead and morphine. There is no clear shared function or pathway connecting these terms, and the cluster has no edges or modular structure, suggesting the proteins do not represent a coherent functional group. Therefore, Unknown with None confidence. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":1},{"id":"GO:0007638","count":1},{"id":"GO:0007286","count":1},{"id":"GO:0045071","count":1},{"id":"GO:0007283","count":1}]},{"hash":"2044699026218992002","title":"Unknown","description":"The top terms span aging, telomere regulation, mRNA stability, SNARE complex regulation, tissue-specific development, cold response, and Wnt signaling, with no coherent shared function or interaction pattern (no edges). This diversity makes it hard to assign a single representative label, so the cluster is best described as Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0010845","count":4},{"id":"GO:1904743","count":4},{"id":"GO:1904355","count":4},{"id":"GO:0043488","count":4}]},{"hash":"119600823606919301","title":"Unknown","description":"The GO terms for this cluster are extremely diverse, including autophagy-related targeting (Cvt pathway), nuclear inheritance, Rho signaling regulation, various developmental processes (adipose tissue and cranial skeletal development), yeast bud site selection, mitotic cytokinesis, mating/conjugation signaling, cell morphogenesis, and ciliogenesis. There is no clear, single biological function or pathway tying these proteins together, and the terms appear as individual, scattered processes rather than a cohesive theme. Therefore, the cluster is best labeled Unknown with None.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":1},{"id":"GO:0048310","count":1},{"id":"GO:0035023","count":1},{"id":"GO:1904179","count":1},{"id":"GO:0007120","count":1}]},{"hash":"966301012096052491","title":"Tight Junction and Synapse Assembly","description":"Dominant terms point to bicellular tight junction assembly and neuromuscular/synaptic development, with regulation of synaptic plasticity and receptor localization to synapse, suggesting a common function in establishing and modulating cell-cell junctions and synaptic contacts. Other processes like cell growth and apoptosis are less central to the cluster\u2019s main theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:2001205","count":2},{"id":"GO:0070830","count":2},{"id":"GO:1903348","count":2},{"id":"GO:0071847","count":2}]},{"hash":"529254726254456866","title":"Embryonic Development and Pattern Formation","description":"GO terms cluster around embryonic development and tissue patterning (pancreatic/endocrine development, placenta/trophoblast differentiation, left-right patterning, cartilage morphogenesis, EMT in heart development). A minority of RNA processing terms appear, but they do not define the cluster. This label captures the overarching theme of developmental differentiation and patterning.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060536","count":3}]},{"hash":"54157815151192988","title":"Steroid Hormone Metabolism and Development","description":"This cluster centers on steroid biosynthesis and metabolism, including testosterone biosynthetic process, androgen metabolic process, and cholesterol catabolic process, along with explicit female gonad development. It also contains broader development terms (digestive tract, retina vasculature) and a link to proliferative processes (G1/S transition), suggesting a theme of lipid-derived hormone metabolism connected to developmental programs across tissues.","confidence":"Medium","size":14,"edges":13,"triangles":2,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0008585","count":6},{"id":"GO:1900087","count":6},{"id":"GO:0061370","count":6},{"id":"GO:0008209","count":6},{"id":"GO:0061298","count":5}]},{"hash":"1752134472654543883","title":"Developmental differentiation and cell cycle","description":"The cluster combines GO terms covering both development across several tissues (striatum, retinal rod cells, prostate gland; male sex differentiation) and core cell cycle processes (cell division, mitotic cell cycle), with an additional link to steroid hormone receptor complex assembly. This points to a set of proteins involved in hormone-responsive development and cellular proliferation rather than a single precise pathway, so a broad label of developmental differentiation and cell cycle is appropriate.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0046661","count":7},{"id":"GO:0030850","count":7},{"id":"GO:0006463","count":7},{"id":"GO:0000278","count":6}]},{"hash":"1953202946238662498","title":"Craniofacial and eye development","description":"The top GO terms are dominated by embryonic development of head structures (cranial skeleton, cartilage, pituitary) and sensory organs (eye, retina) with multiple related multicellular development terms, suggesting the proteins participate broadly in craniofacial and ocular morphogenesis rather than a single metabolic pathway.","confidence":"High","size":14,"edges":20,"triangles":7,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0048701","count":7},{"id":"GO:0051216","count":6}]},{"hash":"1697651162621284541","title":"Neuronal signaling and calcium-dependent regulation","description":"Based on the prominent GO terms, the proteins are enriched for neurotransmitter secretion, calcium ion detection, excitatory postsynaptic potentials, and calcineurin-NFAT signaling, with a neural context suggested by Schwann cell development. Although there are some mitotic cell cycle terms, the prevailing theme centers on neural signaling and Ca2+-dependent regulation, making this a coherent neuronal signaling cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007269","count":8},{"id":"GO:0005513","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0051533","count":7}]},{"hash":"74061834021191589","title":"Synapse Assembly and Plasticity Regulation","description":"The top GO terms indicate a clear focus on synaptic organization and plasticity, including positive regulation of synapse assembly and regulation of synaptic plasticity by receptor localization to synapse. Supporting terms like protein localization to the cell surface and protein heterooligomerization point to membrane-associated synaptic machinery. Some terms (iodide transport, mRNA processing) are less connected, but the dominant signal is neuronal synapse formation and plasticity, justifying the label.","confidence":"Medium","size":14,"edges":22,"triangles":8,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0015705","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0034394","count":2}]},{"hash":"39484465959822147","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for terms related to ribosome assembly and function, including translation (cytoplasmic and general), ribosome biogenesis, and export of the large ribosomal subunit from the nucleus. Additional terms about translational fidelity and stress-related responses are consistent with components involved in ribosome function and regulation. Overall, the common theme ties to ribosome production and protein synthesis.","confidence":"High","size":14,"edges":77,"triangles":245,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0042254","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0046677","count":3},{"id":"GO:1901001","count":2}]},{"hash":"738533418970048987","title":"Ubiquitin-Dependent Proteolysis and Chromatin Regulation","description":"The top terms are dominated by ubiquitin-dependent protein catabolic processes (including SCF-dependent proteasomal degradation) and DNA replication\u2013dependent chromatin assembly, with additional signals for transcriptional regulation and some germline development terms. This points to a cluster centered on protein turnover and chromatin dynamics that influence transcription and cell-cycle processes, rather than a single narrow function. ","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006335","count":2},{"id":"GO:2000973","count":2}]},{"hash":"1486219363296185963","title":"Embryonic development and organ morphogenesis","description":"The top GO terms are dominated by embryonic development and tissue formation, including pancreas/endocrine development, left-right patterning, cartilage morphogenesis, trophoblast differentiation, and EMT-related heart development. Although a couple of terms pertain to RNA processing or obsolete annotations, the overall signal points to developmental processes and organogenesis guiding this cluster.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0035270","count":13},{"id":"GO:0060536","count":13}]},{"hash":"1629206757847861277","title":"Neurodevelopment and Embryonic Morphogenesis","description":"Most of the top GO terms relate to developmental processes\u2014embryonic cranial skeleton morphogenesis, multicellular organism development, neuron migration, angiogenesis, and synapse assembly\u2014pointing to neurodevelopment and tissue morphogenesis. Supporting terms on mRNA processing/decay and proteolysis may reflect broader gene expression and protein turnover in developing tissues. Overall, the cluster appears to capture a developmental/neurodevelopmental program.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0000184","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0006397","count":2}]},{"hash":"317115953757390401","title":"Cell Cycle and DNA Replication","description":"Proteins are enriched for DNA-templated transcription, DNA replication, and key cell cycle transitions (G1/S, G2/M) as well as mitotic spindle regulation, indicating a core theme of cell cycle progression and chromosome duplication.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0000082","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0010696","count":5},{"id":"GO:0033598","count":5}]},{"hash":"2076009803452528347","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms cluster around broad developmental processes across multiple organs (heart, cartilage, placenta, pancreas, inner ear) and patterning events, indicating a theme of embryonic tissue differentiation and organ formation rather than a single specific pathway.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903142","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0003323","count":4}]},{"hash":"2112997796191744938","title":"Dopaminergic Signaling and Sensory Perception","description":"The cluster is dominated by neural and sensory-related GO terms: dopaminergic synaptic transmission, visual learning, visual perception, and sensory perception of pain, plus behavioral response to cocaine, pointing to a theme of dopamine-mediated neural signaling and sensory processing. Peripheral terms like prostaglandin response, ERK cascade regulation, macrophage chemotaxis, and heart development may reflect broader signaling roles or gene pleiotropy but do not override the central neural/sensory pattern. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071380","count":7},{"id":"GO:0048148","count":7},{"id":"GO:0001963","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0007601","count":7}]},{"hash":"1094804487433021097","title":"Potassium Ion Transport and Membrane Potential Regulation","description":"This cluster's top GO terms cluster around potassium flux across membranes (export/import/transmembrane), intracellular potassium homeostasis, and stabilization of membrane potential, which underlie neuronal and cardiac excitability and sperm motility. A few terms are general development or obsolete annotations, but the dominant signal is ion transport and membrane excitability.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0030206","count":3},{"id":"GO:0097623","count":2},{"id":"GO:1990573","count":2}]},{"hash":"1382872809686896755","title":"Embryonic Development and Organogenesis","description":"The GO terms are dominated by broad developmental processes across many tissues (hair follicle morphogenesis, mesoderm development, roof of mouth development, left-right patterning, placental/trophoblast differentiation, endocrine system development). This suggests a general theme of embryonic development and organ formation, rather than a single tissue- or function-specific cluster.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":12},{"id":"GO:0007498","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0060021","count":12},{"id":"GO:0010957","count":12}]},{"hash":"1653975423774105923","title":"Coagulation and Proteolysis with Stress Response","description":"The top GO terms are dominated by coagulation and proteolysis-related processes (blood coagulation, fibrinolysis, proteolysis, digestion), suggesting a core role in proteolytic and hemostatic functions. Additional terms point to cellular stress/immune responses (response to LPS, xenobiotic stimulus, heat) and metabolic signaling (response to glucose), indicating a broader stress-responsive signature. Some terms like Wnt signaling and otolith development appear as less central or outliers, so the label emphasizes proteolysis/coagulation with stress responsiveness rather than a single developmental pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0032496","count":3},{"id":"GO:0016055","count":3}]},{"hash":"1223292536618856635","title":"Embryonic neurovascular development","description":"The top GO terms cluster around neural development (axon extension/axonogenesis) and vascular/embryonic morphogenesis (vasculogenesis, heart contraction, in utero development, axis specification), suggesting a developmental program active in embryogenesis affecting both neural and vascular tissues. Minor term about mitochondrial fission does not override this overall theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048846","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0090141","count":2},{"id":"GO:0048845","count":1},{"id":"GO:0048839","count":1}]},{"hash":"1798841160182136782","title":"Rho/Rac GTPase signaling and actin remodeling","description":"This cluster is dominated by terms related to Rho and Rac small GTPase signaling and cytoskeletal dynamics, including regulation of Rho/Rac pathways, lamellipodium assembly, and adhesion-dependent cell spreading. While it also touches on development and immune processes, the recurring theme is GTPase-driven cytoskeletal remodeling that drives cell movement and shape changes.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0032287","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0030032","count":6},{"id":"GO:0032633","count":6}]},{"hash":"704153662238996257","title":"Innate Immune Signaling and NF-kappaB Regulation","description":"The protein cluster consistently features terms tied to innate immunity, including defense response to virus, innate immune response, and NOD2 signaling, along with regulation of I-kappaB phosphorylation and MHC class I biosynthesis. This points to an innate antiviral signaling module with NF-kappaB pathway involvement; ubiquitin-dependent proteolysis also aligns with immune signaling. Some terms are obsolete, which lowers cohesion, but the core theme remains immune signaling and NF-kappaB regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0070431","count":4},{"id":"GO:0051607","count":3}]},{"hash":"449613057350125952","title":"Embryonic development and morphogenesis","description":"The cluster is enriched for GO terms spanning embryogenesis and organ formation, including palate development, cartilage morphogenesis, left-right patterning, endocardial EMT, and placental/trophoblast differentiation. Also present are regulatory processes such as negative regulation of transcription and mRNA splicing, indicating roles in coordinating developmental programs. Together, these terms point to a developmental/morphogenetic function rather than a single concrete activity.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060021","count":4}]},{"hash":"1020491288806949502","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination and ubiquitin\u2011dependent proteolysis (e.g., ubiquitin-dependent protein catabolic process, K48- and K6-linked ubiquitination, and autoubiquitination, plus ERAD). This points to roles in tagging proteins for degradation by the proteasome, i.e., ubiquitin-proteasome system. A few other terms (peroxisomal import, pain detection) seem peripheral to the main theme. So the inferred function label is \"Ubiquitin-Dependent Protein Degradation.\"","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0085020","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0050966","count":4}]},{"hash":"884467259255539994","title":"Mitotic DNA Replication Machinery","description":"Dominated by mitotic DNA replication and replisome-related terms, including mitotic DNA replication, DNA replication initiation, DNA strand elongation in mitotic replication, and GINS complex assembly. This suggests the proteins function together in the replication fork during mitosis and in preinitiation complex formation. One unrelated entry (inner cell mass cell proliferation) appears incidental.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902969","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0071165","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0006260","count":1}]},{"hash":"706334617617901929","title":"Angiogenesis and growth factor signaling","description":"Based on the GO terms, the cluster centers on vascular biology and endothelial remodeling, with signals from IGF and growth hormone receptors, actin cytoskeleton organization, and endothelial tube lumen extension. Negative regulation of blood vessel remodeling and macrophage/inflammatory regulation (TNF production, macrophage activation) further support a context of angiogenic signaling modulated by inflammatory cues. Although several terms are diverse, the dominant theme points to growth-factor\u2013driven endothelial morphogenesis and vascular remodeling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043031","count":2},{"id":"GO:1900103","count":1},{"id":"GO:0032760","count":1},{"id":"GO:0060396","count":1},{"id":"GO:0035024","count":1}]},{"hash":"1509743403020792248","title":"Developmental Regulators","description":"The terms point to regulation of cell differentiation across multiple lineages (foam cell differentiation, trophoblast differentiation) and development-related processes (axonogenesis, dendrite development, synaptic regulation), with some broader regulatory roles (NO biosynthesis, mRNA processing). The cluster seems to group proteins that influence developmental and differentiation pathways rather than a single, cohesive pathway, justifying a label like Developmental Regulators. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0060385","count":2},{"id":"GO:0060707","count":2}]},{"hash":"543955977899768267","title":"Sugar Transport and Metabolism","description":"The top GO terms cluster around sugar handling: multiple transmembrane transport of glucose, galactose, fructose, xylose, and lactose-related processes, plus insulin-influenced glucose import and glucose starvation responses. This points to a cohesive group of proteins involved in carbohydrate uptake and metabolism at the membrane, with a possible inclusion of vesicle-related transport activities. Confidence: Medium","confidence":"","size":13,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0071332","count":3},{"id":"GO:0019852","count":3},{"id":"GO:0043252","count":3}]},{"hash":"383146228675961201","title":"Immune differentiation and cytokine signaling","description":"Based on the dense representation of immune-development terms (NK T cell differentiation, B cell affinity maturation, hemopoiesis) and cytokine/immune signaling (interleukin-7 and interleukin-4 responses, LPS response), plus shared regulatory signaling (Rac/Rho pathways) and ubiquitination, this cluster appears to group proteins involved in hematopoietic/immune cell differentiation and cytokine-driven signaling.","confidence":"High","size":13,"edges":14,"triangles":5,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051281","count":9},{"id":"GO:0001865","count":9},{"id":"GO:0098761","count":9},{"id":"GO:0032633","count":9},{"id":"GO:0032496","count":9}]},{"hash":"184034168906654418","title":"Developmental and Cell Cycle Regulation","description":"This cluster is enriched for developmental terms (multicellular organism development, lung morphogenesis) alongside core cell cycle processes (DNA replication, chromosome separation), plus gene expression and protein assembly activities (mRNA processing, protein homooligomerization, membrane targeting). The combination suggests proteins involved in developmental regulation together with fundamental cellular machinery, rather than a single focused pathway. A few outlier terms related to immune or sensory functions likely reflect broader regulatory roles or annotation noise but do not dominate the theme. Confidence: Medium","confidence":"","size":13,"edges":16,"triangles":7,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0006915","count":3}]},{"hash":"429881857474217078","title":"Insect Circadian Rhythm and Neurotransmitter Biosynthesis","description":"The terms cluster around circadian rhythm, calcium-mediated signaling, thermotaxis, and biosynthesis of major neurotransmitters (serotonin, GABA, histamine), which together suggest a theme of circadian-regulated neural signaling in insects. Additional transcription-related and pigmentation terms appear broad but do not override the central circadian-neural pattern. Confidence: Medium","confidence":"","size":13,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007623","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006268","count":3},{"id":"GO:0048082","count":2},{"id":"GO:0048085","count":2}]},{"hash":"949980728152498116","title":"RNA processing and translation regulation","description":"The proteins are linked by RNA metabolism: mRNA stability and splicing (including alternative splicing via spliceosome) and translational control (reinitiation and IRES-dependent viral translation), with additional signals for ncRNA-mediated gene silencing and stress-responsive regulation. This points to a cohesive RNA processing/translation regulation cluster, despite some incidental terms.","confidence":"High","size":13,"edges":61,"triangles":175,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":11},{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:1901407","count":9},{"id":"GO:0000380","count":9}]},{"hash":"308591856877600888","title":"Transcription Regulation and Chromatin Modification","description":"This cluster is dominated by GO terms for DNA-templated transcription and histone methylation (chromatin modification), with additional support from mRNA processing. These signals point to a cohesive theme around regulation of gene expression at transcriptional and post-transcriptional levels, even though other terms hint at cytoskeletal or signaling roles. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0070208","count":4},{"id":"GO:0034729","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0010255","count":3}]},{"hash":"435232576309429961","title":"Neural and Visual System Development","description":"These proteins cluster around neural development and the visual system: axonogenesis, retinal cone cell development, visual perception, and Schwann cell development, with supporting transcriptional and cell-cycle processes. The dominant theme is neural differentiation and visual system formation, with glial and synaptic maturation aspects.","confidence":"High","size":13,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000086","count":5},{"id":"GO:0043065","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0014044","count":3}]},{"hash":"1936551128777812592","title":"Mitotic Cell Cycle and Trafficking","description":"This cluster is dominated by mitosis-related GO terms: mitotic cell cycle, mitotic centrosome separation, and cell division, suggesting a core role in cell division. Supporting terms like DNA-templated transcription and receptor recycling point to transcriptional regulation and intracellular trafficking/secretion dynamics that often accompany mitotic progression. While some immune- or sensory-related terms appear, they seem less central to the cluster\u2019s main theme. Overall, the cluster appears to group proteins involved in cell division with associated trafficking processes.","confidence":"Medium","size":13,"edges":53,"triangles":117,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0007100","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0045087","count":6}]},{"hash":"979854704452327611","title":"Chromatin Organization and Assembly","description":"The dominant GO terms point to chromatin-related processes: nucleosome mobilization, heterochromatin formation, DNA replication-dependent chromatin assembly, and ribosomal large subunit biogenesis, all of which are nuclear/chromatin-associated. While there are a few other signals (GTPase regulation, Rho signaling, spermatid development, pro-B cell differentiation) that seem less connected to chromatin, the strongest shared theme across the cluster is chromatin organization and assembly. The single edge and lack of triangles suggest a loose grouping around chromatin-related functions rather than a tightly cohesive pathway, reinforcing a high-level chromatin-centric interpretation with potential secondary associations. ","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0042273","count":2}]},{"hash":"202523608356564642","title":"GPCR-cAMP/cGMP Signaling Regulates Transcription","description":"The terms point to GPCR-mediated signaling that modulates cAMP and cGMP levels (adenosine and adrenergic pathways, forskolin response, cGMP biosynthesis), with a concurrent emphasis on regulation of DNA-templated transcription, indicating a link from receptor signaling to transcriptional control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0001973","count":1},{"id":"GO:0071880","count":1}]},{"hash":"559088330940268071","title":"RNA Metabolism and Translation Regulation","description":"The cluster\u2019s top GO terms cluster around RNA metabolism and gene expression, including transcription initiation by RNA Pol II, RNA-templated transcription, regulation of mRNA tail shortening, translation, and rRNA/tRNA pseudouridine synthesis. Together these imply a common theme of RNA processing/modification and control of protein synthesis. Some terms are obsolete or noisy, and the absence of edges suggests limited connectivity in this dataset, but the core theme remains RNA metabolism and translation. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060213","count":2},{"id":"GO:0000291","count":2},{"id":"GO:0097394","count":2},{"id":"GO:0006367","count":2},{"id":"GO:0045948","count":2}]},{"hash":"790198604224443892","title":"Plant Cell Wall Biosynthesis and Pectin/Xylan Production","description":"The cluster shows a strong representation of plant cell wall-related processes: homogalacturonan biosynthesis, plant-type secondary cell wall biogenesis, and general cell wall organization, along with glucuronoxylan and mucilage biosynthesis. Additionally, protein O-linked glycosylation terms (via GalNAc and mannose) suggest regulation of wall proteins. Together, these terms point to coordinated synthesis and modification of plant cell wall polysaccharides (pectin, xylan) and their associated proteins.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010289","count":2},{"id":"GO:0043403","count":2},{"id":"GO:0009834","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0016266","count":2}]},{"hash":"293656194633157341","title":"Coagulation, complement, and cell\u2013ECM adhesion","description":"The top GO terms point to hemostasis and immune signaling (blood coagulation, complement activation) together with cell adhesion and migration, and hints of extracellular matrix remodeling (hyaluronan metabolism, metallopeptidase activity). While a chlorophyll biosynthesis term appears, the dominant theme across multiple terms supports a cluster centered on coagulation, immune interaction, and ECM interactions. Therefore, a label like this captures the primary functional theme of the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":4},{"id":"GO:0045123","count":3},{"id":"GO:0006956","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0034113","count":3}]},{"hash":"1964688965395634976","title":"Membrane Nutrient Transporters","description":"The proteins show strong enrichment for transmembrane transport terms across diverse small molecules and ions (glucose, pantothenate, biotin, myo-inositol, sodium ions), suggesting a shared role as membrane transporters for nutrients and ions. A few terms pertain to development or immune regulation, but the dominant signal is solute transport, making this a coherent and concise label for the cluster.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":3},{"id":"GO:0008292","count":3},{"id":"GO:0071436","count":3},{"id":"GO:0015887","count":3},{"id":"GO:0015878","count":3}]},{"hash":"1836720875808899553","title":"Dopaminergic and GABAergic Synaptic Regulation","description":"The terms cluster around regulation of synaptic vesicle exocytosis, GABAergic transmission, and dopamine secretion/uptake, with related vesicle trafficking (Golgi to plasma membrane) and downstream signaling (ERK cascade). While a few outliers appear (ossification, mating projection growth), the dominant theme is control of synaptic neurotransmission and vesicle dynamics in neurons.","confidence":"High","size":13,"edges":20,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0006893","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0014059","count":2}]},{"hash":"2061396036025669917","title":"Neuronal migration and vesicle trafficking","description":"This cluster is dominated by GO terms describing neuronal development and migration (various cortex and olfactory bulb interneuron migrations) alongside vesicle trafficking and secretory pathway processes (synaptic vesicle budding, regulated secretory pathway, Golgi localization). While there are a few outliers (keratinization, drug response), the central theme ties neuronal maturation with intracellular transport and secretion. ","confidence":"Medium","size":13,"edges":38,"triangles":58,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070142","count":13},{"id":"GO:0022028","count":13},{"id":"GO:0021799","count":13},{"id":"GO:0097212","count":13},{"id":"GO:0000042","count":13}]},{"hash":"1240693132919871481","title":"Inflammation and ECM Remodeling","description":"The cluster features signals tied to cell adhesion and extracellular matrix turnover (proteoglycan catabolic process, cell adhesion) along with inflammatory pathways (chronic inflammatory response, TNF production), plus BMP-related signaling and differentiation cues, pointing to a tissue-remodeling and immune-interaction theme rather than a single tight pathway. Some terms (e.g., ovulation, motor learning) appear as broader context signals but are less central to the core theme.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0001542","count":3},{"id":"GO:0019836","count":3},{"id":"GO:0001558","count":3},{"id":"GO:0061743","count":3}]},{"hash":"177545937299720110","title":"Unknown","description":"The top GO terms span metabolic signaling (insulin receptor pathway, prostaglandin response), GPCR regulation, cell cycle, JNK pathway control, and diverse immune/cytokine processes (NK T differentiation, IL-7 response, IL-4 production) as well as muscle development. There is no single, cohesive biological theme uniting these terms for this cluster, so a clear, specific label cannot be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0071380","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0046329","count":2}]},{"hash":"1100027621630676447","title":"Unknown","description":"The top GO terms cover a mix of development (hippo signaling, head involution, hemocyte development), immune/process terms (B cell homeostasis, platelet formation), and various stress responses (response to antibiotic, cobalt ion, glucocorticoid). With no edges connecting the proteins, there is no clear, cohesive biological theme to anchor a specific label, so Unknown is the most appropriate.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035329","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0032025","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0007516","count":2}]},{"hash":"252769936040622561","title":"Innate Immune Signaling and Leukocyte Trafficking","description":"Dominant terms point to innate immune recognition and leukocyte movement, including leukocyte tethering/rolling, C-type lectin receptor signaling, Fc-gamma receptor signaling, NK cell chemotaxis regulation, and lectin pathway complement activation. A few kidney development terms appear only once and do not define the cluster\u2019s core function. Overall, the immune-related annotations best explain the cluster, despite the sparse edges. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":1},{"id":"GO:0002223","count":1},{"id":"GO:0051873","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0050901","count":1}]},{"hash":"120006977835015509","title":"Sympathetic GPCR-Driven Thermogenesis and Blood Pressure Regulation","description":"Dominated by GPCR-cAMP signaling (adenylate cyclase activation) linked to energy expenditure and heat generation (diet-induced thermogenesis), plus vasoconstriction and blood pressure regulation. The inclusion of electron transport chain terms supports the energy needs of thermogenesis. Some terms like pain perception and glomerular filtration are less central but can be related to broader signaling networks; overall, the cluster centers on catecholamine-driven thermogenesis and cardiovascular control.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0007190","count":8},{"id":"GO:0019233","count":7}]},{"hash":"1554884278989193507","title":"Carbohydrate transport and metabolism","description":"Based on the top GO terms, the cluster centers on sugar handling and transport, including responses to glucose and other sugars (fructose, galactose, xylose), sugar import and transmembrane transport, and lactose biosynthesis, with supporting general transporter processes and a vesicle loading term. This suggests these proteins are grouped by carbohydrate handling and related membrane transport functions, justifying a carbohydrate transport and metabolism label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":7},{"id":"GO:0098700","count":7},{"id":"GO:0071332","count":7},{"id":"GO:0019852","count":7},{"id":"GO:0043252","count":7}]},{"hash":"83004863607835247","title":"Stimulus-responsive GPCR signaling and metabolic responses","description":"This cluster features GO terms tied to GPCR-activated signaling (adenylate cyclase), prostaglandin response, pain perception, temperature- and diet-related thermogenesis, and xenobiotic response, with an additional electron transport chain term reflecting metabolic context. Taken together, these terms point to coordinated stimulus sensing and downstream signaling coupled to metabolic regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0045777","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0071380","count":4},{"id":"GO:0007190","count":4}]},{"hash":"280508296270099485","title":"Neuronal synaptic signaling and sensory processing","description":"The top terms cluster around synaptic transmission (including excitatory postsynaptic potential and neuromuscular transmission) and sensory/behavioral responses (visual perception, startle, memory), indicating a coherent theme of neural signaling and processing, despite a couple of outliers.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0050908","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0001964","count":2},{"id":"GO:0060079","count":2}]},{"hash":"2081176286625143363","title":"Sphingolipid metabolism and inflammatory signaling","description":"The cluster is enriched for sphingolipid-related processes (phytosphingosine metabolic process, sphingosine biosynthetic process, dihydrosphingosine-1-P pathway) and inflammatory regulation (inflammatory response; regulation of IL-1\u03b2 production; regulation of TNF-mediated signaling). This points to a coherent theme of sphingolipid-mediated signaling in immune/inflammatory contexts, with secondary associations to brain development and fibroblast proliferation that can be influenced by lipid signaling pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0046835","count":3},{"id":"GO:0006671","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0032651","count":2}]},{"hash":"1919096482543230043","title":"Neuroimmune Development","description":"The top GO terms include neural development processes (ventricular zone neuroblast division, olfactory lobe/bulb development, neuron projection development) alongside immune-related activities (adaptive immune response, regulation of chemokine production, NK/T cell cytotoxicity). This mix suggests a theme of neuroimmune interplay or pleiotropic proteins involved in both nervous system development and immune signaling, even though there are no visible edges linking them in the cluster. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021847","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0021988","count":1},{"id":"GO:0021772","count":1},{"id":"GO:0060370","count":1}]},{"hash":"1138367780504805046","title":"Innate Immune Activation and Signaling","description":"This cluster shows multiple GO terms tied to innate immune responses and inflammatory signaling: defense response to virus, macrophage activation, toll-like receptor 2 signaling, and regulation of NLRP3 inflammasome assembly. Additional terms involving CAMKK-AMPK signaling and JAK-STAT pathway regulation suggest broader signaling coordination, and a few neural development terms may reflect shared signaling networks rather than core function. Overall, the dominant theme is innate immune activation and inflammatory signaling, with some pleiotropic pathways represented, hence a Medium confidence.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:1900227","count":2},{"id":"GO:0051607","count":2},{"id":"GO:1905289","count":2},{"id":"GO:0042116","count":2}]},{"hash":"2048451662784613282","title":"Embryonic development and organ morphogenesis","description":"This cluster shows a broad set of differentiation and morphogenesis terms spanning cardiac muscle differentiation, motor neuron guidance, ectoderm formation, nephric development, and even plant ovule morphogenesis, indicating a general theme of developmental patterning and organ shaping across tissues and species. Confidence: Medium","confidence":"Medium","size":12,"edges":42,"triangles":49,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":4},{"id":"GO:0055011","count":4},{"id":"GO:2000691","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0060396","count":4}]},{"hash":"155958929583224056","title":"Lung morphogenesis and apoptotic regulation","description":"The cluster centers on lung development (lung morphogenesis) and regulation of apoptosis/Wnt signaling, with accompanying cell migration and proteasomal regulation, suggesting a cohesive role in developmental remodeling of the lung. Additional terms like mRNA processing and chromosome separation are more general, but do not contradict this core theme.","confidence":"Medium","size":12,"edges":11,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090090","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0043065","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0045056","count":6}]},{"hash":"890165635240607741","title":"Mitochondrial maintenance and neural signaling","description":"This cluster centers on mitochondrial processes: regulation of autophagy of mitochondrion, calcium import into the mitochondrion, protein import into the mitochondrial matrix, and regulation of ROS metabolism. In addition, there are neural-related terms (neuron-neuron synaptic transmission, learning, behavioral fear response) that suggest a subset of mitochondrial proteins linked to neural activity and behavior. While a few terms like fin regeneration and epithelial differentiation are present, the dominant theme ties to mitochondrial maintenance with a neural signaling component.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903146","count":3},{"id":"GO:0031101","count":2},{"id":"GO:2000378","count":2},{"id":"GO:0036444","count":2},{"id":"GO:0030855","count":2}]},{"hash":"2224825302432483550","title":"Unknown","description":"The GO terms span heart and placenta development, vasoconstriction, nervous system processes, and mitochondrial fission with regulation, but there isn\u2019t a single cohesive biological theme linking these proteins to one function or pathway. This diversity makes a concise, representative label difficult.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0000266","count":3},{"id":"GO:0061000","count":3},{"id":"GO:0090141","count":2}]},{"hash":"1210518641111265936","title":"Unknown","description":"The top terms span antibiotic response, transcription regulation, proteolysis, cell division, innate immunity, development, and several distinct biosynthetic processes (mycolic acid, anthocyanin, testosterone, dTDP-rhamnose) across different biological contexts. The lack of a coherent shared function and zero edges/triangles suggests no single theme ties these proteins together. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2135940969915976667","title":"Multi-pathway signaling repression (BMP/TGF-\u03b2, NF-\u03baB)","description":"Most of the top GO terms cluster around negative regulation of signaling pathways, especially BMP signaling (and SMAD/TGF-\u03b2 receptor-related processes) and non-canonical NF-\u03baB signaling. Additional terms point to regulatory activities like dephosphorylation and nuclear export, with some plant-development context (meristem identity) and other cellular regulation. Taken together, the proteins appear to function as a module that dampens multiple signaling pathways rather than a single, cohesive pathway, justifying a label centered on broad signaling repression.","confidence":"Medium","size":12,"edges":32,"triangles":31,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042347","count":5},{"id":"GO:0046827","count":5},{"id":"GO:0030514","count":4},{"id":"GO:0080005","count":4},{"id":"GO:0010991","count":4}]},{"hash":"1216232588131229813","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":55,"triangles":135,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":3},{"id":"GO:0071374","count":3},{"id":"GO:1901621","count":3},{"id":"GO:0046825","count":3},{"id":"GO:0001707","count":3}]},{"hash":"322412786332752222","title":"Neuronal development and nutrient-responsive TORC1 signaling","description":"The top GO terms cluster around brain development and nutrient response, with TORC1 signaling and ribosome biogenesis pointing to growth and protein synthesis. ER-Golgi transport and GTPase activity relate to vesicle trafficking, important for neuronal differentiation. Some terms are broader (aging, cell division, apoptosis) but can be involved in neural development and fate decisions. Overall, the cluster appears to reflect neuronal development linked to nutrient-sensing growth pathways. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0007584","count":4},{"id":"GO:1904263","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0043547","count":4}]},{"hash":"826001853579413465","title":"Developmental Differentiation Regulators","description":"The top GO terms cluster around regulation of differentiation and signaling pathways across multiple tissues (Notch signaling; skeletal muscle differentiation; hair cycle, inner ear receptor cell differentiation, pancreatic cell fate, Malpighian tubule tip cell differentiation, etc.), suggesting these proteins act as general regulators of cell fate decisions during development rather than a single-tissue function.","confidence":"Medium","size":12,"edges":57,"triangles":151,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060766","count":10},{"id":"GO:0045668","count":10},{"id":"GO:0007219","count":8},{"id":"GO:0035914","count":8},{"id":"GO:0042634","count":8}]},{"hash":"2253882022680386334","title":"Brain development and neuronal differentiation","description":"The proteins show enrichment for neural development terms such as cerebral cortex neuron differentiation and striatum development, plus locomotory behavior, suggesting a neural-development-focused cluster. Some metabolic terms (ergothioneine biosynthesis, nucleotide salvage, UDP-N-acetylglucosamine biosynthesis) may reflect broader cellular processes or annotation noise and do not override the brain-focused theme. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":1},{"id":"GO:0021895","count":1},{"id":"GO:0052704","count":1},{"id":"GO:0006048","count":1},{"id":"GO:0007626","count":1}]},{"hash":"772819140149602818","title":"Plant arabinogalactan protein glycosylation and root hair development","description":"The top GO terms cluster around arabinogalactan protein (AGP) metabolism, AGP-related glycosylation (poly-N-acetyllactosamine, Lewis A epitope), mucilage biosynthesis, and root hair development, all pointing to plant cell-surface glycoproteins and their role in cell wall assembly and root hair formation. Some terms from other tissues appear, but the dominant signal is AGP/glycoprotein\u2013mediated cell wall processes in plants.","confidence":"High","size":12,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0048354","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0042248","count":3},{"id":"GO:0001744","count":3}]},{"hash":"367864511357962340","title":"RNA Metabolism and Translation Control","description":"The cluster\u2019s top GO terms center on RNA processing and regulation (spliceosome, small-subunit processome, mRNA stabilization, polyadenylation regulation) together with translational control (translation reinitiation, IRES-dependent initiation, viral termination-reinitiation). This combination suggests a cohesive functional theme around RNA processing and the control of translation, including viral contexts.","confidence":"High","size":12,"edges":44,"triangles":63,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0048255","count":3}]},{"hash":"1677831516780349319","title":"Multilineage Development and Notch Signaling","description":"The top terms point to broad developmental processes and cell fate specification across multiple tissues (neural progenitors, oligodendrocyte/motor neuron fates, bronchiole and pancreas development, skeletal muscle, hair cycle) with Notch signaling as a recurring regulatory thread, plus general transcription by RNA polymerase II. This suggests a cohesive theme of developmental differentiation rather than a single tissue-specific function.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0021892","count":11},{"id":"GO:0021530","count":11},{"id":"GO:0021520","count":11},{"id":"GO:0060163","count":11}]},{"hash":"1652337330292923800","title":"Ammonium Transport and Nitrogen Utilization","description":"The cluster\u2019s top GO terms center on ammonium and methylammonium transport (ammonium transmembrane transport, transepithelial ammonium transport, methylammonium transport) and nitrogen utilization and its regulation, suggesting a core theme of nitrogen acquisition and handling via transporters. While some terms reference nutrient-stress\u2013related growth phenotypes (pseudohyphal and invasive growth under glucose limitation) and others involve carbon dioxide transport or iron homeostasis, the predominant signal is nitrogen transport and metabolism, pointing to a transporter-focused nitrogen utilization module. ","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060586","count":1},{"id":"GO:0007124","count":1},{"id":"GO:0015843","count":1},{"id":"GO:0070634","count":1},{"id":"GO:0080181","count":1}]},{"hash":"126210351961375744","title":"Retina Development and Photoreception","description":"The cluster's top GO terms emphasize retina development and absorption of visible light, suggesting a visual-system oriented function; while other terms cover signaling and physiological processes, the strongest, coherent theme is photoreception and retina development; thus the label 'Retina Development and Photoreception' best captures the shared function.","confidence":"Medium","size":12,"edges":10,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043278","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0060041","count":7},{"id":"GO:0008284","count":7},{"id":"GO:0008283","count":7}]},{"hash":"1022598595043310126","title":"Neural Development Transcription Regulation","description":"Based on the GO terms, the cluster is anchored by transcription-related processes (RNA polymerase II\u2013mediated transcription, DNA-templated transcription, negative regulation of transcription) and neural-development signals (retina development, habenula development, neuronal cell fate commitments). This points to proteins that function as transcriptional regulators guiding neural differentiation and regional brain/eye development. A few muscle differentiation terms are present as minor outliers, but the dominant theme remains neural development through transcriptional control.","confidence":"Medium","size":12,"edges":43,"triangles":74,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006366","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0021986","count":4}]},{"hash":"1525212988513960466","title":"Inner ear development and auditory perception","description":"Dominant GO terms point to hearing and ear morphogenesis (sensory perception of sound; inner ear development) with supporting signals for hair cell planar polarity and neuronal adhesion, suggesting the cluster centers on ear/ear hair cell biology and auditory function. Some terms appear more general or incidental, but the strongest theme is inner ear development and hearing.","confidence":"High","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":12},{"id":"GO:0007626","count":11},{"id":"GO:0048839","count":9},{"id":"GO:0003165","count":9},{"id":"GO:0090176","count":9}]},{"hash":"2226895522901153853","title":"Optic nerve development and retinal axon guidance","description":"The cluster is enriched for neural development terms centered on the visual system: retinal ganglion cell axon guidance, optic nerve morphogenesis, and fasciculation of sensory neuron axons, plus trans-synaptic signaling and MAPK cascade involvement, indicating a shared role in optic nerve formation and axon pathfinding. Some terms (DNA replication, chromosome separation) may reflect general cellular processes; the strongest signal points to optic nerve/retinal development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0051304","count":4},{"id":"GO:0000196","count":4},{"id":"GO:0097155","count":4}]},{"hash":"1908255871272220528","title":"Telomere Maintenance Regulation","description":"This cluster most clearly centers on telomere biology, as seen by the two direct terms: positive regulation of telomere capping and positive regulation of telomere maintenance via telomerase. The other terms suggest broader regulatory or differentiation roles that may accompany telomere-related functions, but the telomere maintenance theme appears to be the core signal.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0006397","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0010745","count":3},{"id":"GO:2001275","count":3}]},{"hash":"1019981673415342024","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007021","count":2},{"id":"GO:2001287","count":1},{"id":"GO:0006897","count":1}]},{"hash":"1775366747901985795","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000472","count":2}]},{"hash":"1356788384612959815","title":"Heart development and endocardial EMT","description":"The cluster\u2019s top GO terms strongly point to cardiac morphogenesis, especially heart development and epithelial-to-mesenchymal transition involved in endocardial cushion formation, along with related signaling (Rho and Ras pathways) and broader developmental processes (endocrine system development). While some terms pertain to general RNA processing machinery, the core theme is heart development and EMT during cardiac formation, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0000055","count":3}]},{"hash":"1874223452613697127","title":"Systemic GPCR-cAMP signaling for vascular homeostasis","description":"Top GO terms point to GPCR-mediated activation of adenylate cyclase and cAMP production, influencing vascular tone and blood pressure, renal filtration, and metabolic regulation, with additional connections to Rho signaling and temperature-related responses. This suggests a cohesive theme of systemic homeostatic signaling centered on GPCR-cAMP pathways affecting cardiovascular and renal function, with supportive links to metabolism.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0007190","count":9},{"id":"GO:0019233","count":9}]},{"hash":"2125566624965750148","title":"Mitotic cell cycle and ribosome biogenesis","description":"This cluster is dominated by terms tied to mitosis and cell division (mitotic cell cycle, cell division, APC-dependent catabolic process) and DNA replication coordination in mitosis (Okazaki fragment processing in mitotic DNA replication). In addition, several terms point to ribosome biogenesis and translation initiation (maturation of rRNA species, formation of translation preinitiation complex). The co-occurrence of cell-cycle\u2013related processes with ribosome maturation/translation suggests a cohesive theme around mitotic progression coupled with ribosome biogenesis, yielding a high-confidence label. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000466","count":3},{"id":"GO:1903461","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1128733806554180102","title":"Heart development and vascular differentiation","description":"The top terms point to cardiac morphogenesis (right atrium) and Notch signaling in heart field/vascular progenitors, plus venous endothelial differentiation, suggesting a cardiovascular development theme. Additional items about mechanical stimulus response and vitamin D signaling fit with tissue-specific regulation in cardiovascular contexts, while general processes like mRNA processing and dephosphorylation are supportive background functions. Overall, the most cohesive theme is heart and vascular development with associated signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003213","count":5},{"id":"GO:0003270","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0060843","count":5},{"id":"GO:0071260","count":5}]},{"hash":"2161305557424298228","title":"Neuronal mRNA processing and protein ubiquitination","description":"The terms show a strong focus on mRNA processing and stability (GO:0006397, GO:0043488) and ubiquitin-dependent protein turnover (GO:0042787, GO:0016567), with supporting signals for synaptic plasticity and dendrite regulation (GO:1900383, GO:1904743, GO:1904355). Vitamin D response and telomere-related terms appear to be less central, suggesting the core cluster reflects coordinated RNA processing and protein degradation processes at synapses that influence neuronal plasticity. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0016567","count":4},{"id":"GO:1900383","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1569486879864868713","title":"Developmental Transcription and Splicing","description":"This cluster is dominated by terms pointing to developmental processes (mesoderm development, hair follicle morphogenesis, endocrine system development, EMT in heart formation) along with transcriptional regulation and mRNA splicing, suggesting proteins involved in developmental gene expression and RNA processing.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051220","count":12},{"id":"GO:0036086","count":12},{"id":"GO:0000398","count":12},{"id":"GO:0010957","count":12},{"id":"GO:1903026","count":12}]},{"hash":"463492900370121863","title":"Neuronal synaptic plasticity and spine morphogenesis","description":"The terms converge on neuronal signaling and synaptic remodeling: Rho-mediated signal transduction, intracellular signaling, dendritic spine morphogenesis, positive regulation of synapse structural plasticity, and long-term synaptic depression. Behavioral terms like vocalization and social behavior hint at downstream neural circuitry functions, supporting a module focused on activity-dependent synaptic plasticity and spine remodeling in neurons.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0007605","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0060997","count":2}]},{"hash":"1523515622711205938","title":"Actin Cytoskeleton Dynamics and Mitotic Spindle Assembly","description":"The top GO terms point to actin filament depolymerization, actin network formation, and regulation of Rho signaling, along with mitotic spindle assembly and contractile ring processes. This suggests the cluster is enriched for proteins involved in remodeling the actin cytoskeleton during cell division, with a supporting role in related signaling and organization. A few terms related to brain development and tight junction localization may reflect broader roles or annotations, but the central theme is cytoskeletal regulation during mitosis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030042","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1904706","count":1},{"id":"GO:1901078","count":1}]},{"hash":"13764879039389637","title":"Neuronal development and synaptic plasticity","description":"The top GO terms point strongly to neural development and function, with neuron migration, substantia nigra development, regulation of synaptic plasticity, and action potential dynamics suggesting a cluster of proteins involved in brain development and neural signaling. Other terms relate to neural contexts (glucocorticoid signaling in the nervous system) or general cellular processes (Golgi localization, DNA-damage\u2013related apoptosis) that are present but secondary to the neural theme.","confidence":"High","size":11,"edges":31,"triangles":45,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010482","count":3},{"id":"GO:1900740","count":3},{"id":"GO:0042921","count":3},{"id":"GO:0001764","count":3},{"id":"GO:0051683","count":3}]},{"hash":"1242965026364458388","title":"Energy metabolism and quinone biosynthesis","description":"The cluster is dominated by core metabolic pathways: glycolysis, the TCA cycle, pyruvate decarboxylation to acetyl-CoA, and 2-oxoglutarate metabolism, which point to central carbon metabolism. In addition, multiple quinone biosynthesis terms (menaquinone and phylloquinone) suggest involvement of electron transport components. Other terms like fatty acid biosynthesis and sodium ion transport fit within broader metabolism, while antibiotic biosynthetic process hints at secondary metabolism; the obsolete mitochondrial genome maintenance term likely reflects noise. Overall, a cohesive theme around energy production and quinone-related biosynthesis. ","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0009234","count":3},{"id":"GO:0006086","count":3},{"id":"GO:0006103","count":3}]},{"hash":"1172628880110345676","title":"Developmental Signaling and Stress Response","description":"The terms point to developmental processes (heart and hippocampus development) and neuronal signaling (TRK) alongside multiple stress and survival pathways (hippo signaling, apoptosis, NF-kB, xenobiotic/LPS/X-ray responses) suggesting a cluster of proteins coordinating development with cellular stress and survival signals.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0010165","count":3},{"id":"GO:0035329","count":3}]},{"hash":"1126754402444484798","title":"Plant signaling and development regulators","description":"Most enriched terms point to negative regulation of signaling pathways (BMP/TGF-\u03b2, SMAD, NF-kappaB-related) and related phosphatase activity, alongside developmental processes such as meristem identity. The presence of plant-specific terms (photosystem stoichiometry adjustment, vacuole fusion, meristem maintenance) suggests these proteins act as regulators coordinating signaling and growth in plants, with some connection to organellar and developmental regulation. Confidence: Medium","confidence":"","size":11,"edges":22,"triangles":22,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":8},{"id":"GO:0030514","count":5},{"id":"GO:0080005","count":5},{"id":"GO:0042347","count":5},{"id":"GO:0010991","count":5}]},{"hash":"1910346693963497186","title":"Multitissue Development and Organogenesis","description":"Predominant terms describe tissue- and organ-level development (fat cell, heart, face, placenta development), suggesting the cluster centers on developmental differentiation and organogenesis across tissues. Additional terms indicate regulatory and signaling processes but do not override this theme. So Multitissue Development and Organogenesis is a concise fit.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0002029","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0071222","count":2}]},{"hash":"2166131013000769834","title":"Quinone Biosynthesis and Central Metabolism","description":"The cluster centers on quinone biosynthesis (menaquinone and phylloquinone) and ties to core metabolism (TCA cycle, fatty acid beta-oxidation, amino acid catabolism) with an additional antibiotic biosynthetic term. This suggests a theme of quinone-related electron transport linked metabolism alongside broader central metabolic processes, rather than a single narrowly defined function. ","confidence":"Medium","size":11,"edges":24,"triangles":23,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0010124","count":2},{"id":"GO:0009234","count":2}]},{"hash":"1378969515386009631","title":"MVB Assembly and Golgi Retention","description":"This cluster centers on vesicle trafficking pathways, with multiple terms pointing to multivesicular body (MVB) assembly, intralumenal vesicle formation, and ubiquitin-dependent sorting to MVBs, as well as protein retention in the Golgi. Together these suggest a coherent theme of endosomal trafficking and cargo sorting, with incidental mentions of related membrane processes like nuclear envelope reassembly and cytokinesis that may reflect shared dynamics. The LPS response and apoptotic terms appear less connected to the core trafficking theme, likely representing noise.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0043162","count":2}]},{"hash":"1957666043840117125","title":"Protein Complex Assembly and Immune Coagulation Signaling","description":"This cluster centers on protein complex assembly (heterotrimerization, proteasome assembly) and signaling (TORC1, GTPase regulation), with additional links to immune and hemostatic processes (complement activation, blood coagulation, cell adhesion). The mix suggests a theme of coordinated protein organization and signaling that underpins immune/coagulation responses, though a single precise function is not exclusive across all members.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":6},{"id":"GO:0043248","count":5},{"id":"GO:0070262","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0038202","count":4}]},{"hash":"1941246049834959432","title":"RNA, Histone, and Peptide Methylation","description":"The top GO terms cluster around various methylation processes (rRNA methylation, histone H4-R3 methylation, peptidyl-lysine dimethylation, peptidyl-glutamine methylation), suggesting the proteins act as methyltransferases modifying RNA, histones, and peptides; other biosynthetic terms appear less central to the core function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008206","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0018364","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0009236","count":2}]},{"hash":"2305304311741900040","title":"DNA replication and cell cycle regulation","description":"The top GO terms are dominated by mitotic cell cycle, DNA-templated transcription, DNA replication, and DNA repair, pointing to a core function in nuclear genome maintenance and cell division. While other terms (Rho signaling, pseudohyphal growth, innate immunity, and development) appear, they are secondary to the central DNA-processing theme, justifying a label focused on replication and cell cycle control.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0010954","count":5}]},{"hash":"1468328630238743979","title":"Metabolic Stress Response and Detoxification","description":"This cluster is dominated by GO terms involving detoxification and metabolism (prostaglandin biosynthetic process; cellular oxidant detoxification; glutathione metabolic process; toxin catabolic process) and a starvation response, pointing to cellular adaptation to metabolic stress. Additional terms related to calcium signaling in muscle and DNA repair suggest broader stress-response and maintenance roles, but the core signal is metabolic stress response with detoxification functions.","confidence":"Medium","size":11,"edges":50,"triangles":130,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":8},{"id":"GO:0042594","count":8},{"id":"GO:0014810","count":8},{"id":"GO:0009407","count":8},{"id":"GO:0098869","count":8}]},{"hash":"1591603632123428517","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":26,"triangles":34,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0000467","count":10},{"id":"GO:0000378","count":10},{"id":"GO:0000398","count":10},{"id":"GO:0009432","count":10}]},{"hash":"1122992723367094941","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":48,"triangles":114,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000467","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0034475","count":3},{"id":"GO:0071042","count":3}]},{"hash":"1875605411285291767","title":"Unknown","description":"The listed GO terms span translation initiation, brain and oligodendrocyte development, stress responses (cadmium and nitric oxide), and DNA replication processes, with no single unifying function evident and no edges connecting proteins. This dispersion suggests no cohesive theme for a specific label, so Unknown is appropriate.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006310","count":2},{"id":"GO:0097046","count":2},{"id":"GO:0071732","count":2}]},{"hash":"2118984687092598936","title":"Embryonic Development and Morphogenesis","description":"These GO terms cluster around vertebrate embryonic development and tissue morphogenesis, including mesoderm development, hair follicle formation, palate/roof of mouth development, endocrine system development, and EMT-related heart formation. While a couple terms touch on chromatin regulation, the dominant signal is developmental processes shaping tissues and organs, justifying a label focused on development and morphogenesis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034773","count":2},{"id":"GO:0090309","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0010957","count":2}]},{"hash":"843944475346524008","title":"Wnt and Hippo signaling in keratinocyte differentiation","description":"Top GO terms converge on epithelial signaling (Wnt, Hippo, ephrin), keratinocyte differentiation, and apoptosis, with additional links to cell cycle and transcription. This suggests a module regulating keratinocyte fate and proliferation through coordinated signaling pathways, tempered by apoptotic and ER-stress responses. Confidence: Medium","confidence":"","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0090314","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0030216","count":5}]},{"hash":"704896133232878202","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster around ribosome assembly, ribosome biogenesis, and translation, with linked cell-cycle concepts, pointing to a cohesive module of ribosome production and protein synthesis during cell growth; a few stress or signaling-related terms appear as peripheral outliers.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1568140661681275704","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms tied to embryonic development and organogenesis (mesoderm development, palate/roof of mouth development, endocardial cushion formation, pancreatic endocrine development, endocrine system development). Additional terms reflect transcriptional regulation and RNA processing, which are common in developmental gene expression but do not outweigh the overarching theme of development and tissue morphogenesis. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":11},{"id":"GO:0007498","count":11},{"id":"GO:1903026","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0010957","count":11}]},{"hash":"1280008646857538812","title":"Nuclear Spliceosome Assembly and mRNA Processing","description":"Dominant GO terms describe spliceosome-related processes (mRNA cis splicing via spliceosome, spliceosomal snRNP and complex assembly) and broader mRNA metabolism (deadenylation-dependent decapping, P-body assembly, histone mRNA metabolism). Import into the nucleus supports a nuclear RNA-processing role, consistent with a cluster enriched for splicing factors and RNA processing components. A few chromatin-related and hormone response terms appear secondary to the main RNA-processing theme.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0051170","count":8},{"id":"GO:1990141","count":8},{"id":"GO:0008334","count":8},{"id":"GO:0000387","count":8}]},{"hash":"1529469399830891921","title":"Neuronal spine development and Rac signaling","description":"The cluster centers on neuronal development and synaptic structure, highlighted by hippocampus and substantia nigra development terms, excitatory postsynaptic potential, and positive regulation of dendritic spine development, plus Rac-mediated cytoskeletal remodeling (Rac signaling, lamellipodium/ruffle assembly). This suggests actin-driven spine formation and synaptogenesis as the core theme, with mitotic spindle assembly appearing incidental.","confidence":"High","size":11,"edges":18,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0021762","count":2}]},{"hash":"542083415238226326","title":"Developmental signaling and gene expression regulators","description":"The term set centers on developmental processes (endocrine system development, hair follicle morphogenesis, EMT in heart formation) and on regulation of gene expression (intracellular signaling, mRNA splicing, transcription regulation), suggesting a cluster of proteins that coordinate development via signaling and transcriptional control.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0051220","count":2},{"id":"GO:0036086","count":2},{"id":"GO:0000398","count":2}]},{"hash":"362531666846961402","title":"RNA processing and translational regulation","description":"The cluster is enriched for GO terms related to mRNA splicing (spliceosome), translation reinitiation, mRNA stabilization, and viral translational strategies, which together point to RNA processing and control of translation. Some terms also reflect cellular responses to metabolic cues (hypoxia, insulin, and amino acid stimulus), suggesting adaptation to stress/metabolic conditions. A less central term on phosphate ion transport may reflect broader energy/metabolism signaling. Overall, the common thread is RNA processing and translational regulation.","confidence":"Medium","size":11,"edges":32,"triangles":27,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071456","count":4},{"id":"GO:0032869","count":4},{"id":"GO:0071230","count":4},{"id":"GO:0035435","count":3},{"id":"GO:1901407","count":3}]},{"hash":"2026044733430091440","title":"Unknown","description":"The top GO terms span immune activation, diverse differentiation programs (muscle, mesenchymal, cartilage, germ cell, nervous system), transcriptional/epigenetic regulation, and DNA binding, with no single cohesive function linking the proteins. ","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002281","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0007289","count":1},{"id":"GO:0045819","count":1},{"id":"GO:0060534","count":1}]},{"hash":"1741220783628386998","title":"Embryonic development and organ morphogenesis","description":"The terms are dominated by embryogenesis and organogenesis: various developmental processes (hindlimb, eye, heart, outflow tract), plus neural development (habenula, cerebellar granule cell precursors) and DNA-templated transcription, suggesting a cluster of proteins involved in developmental regulation and organ formation.","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0008584","count":10},{"id":"GO:0001701","count":9},{"id":"GO:0035116","count":9},{"id":"GO:0048048","count":9}]},{"hash":"1910041309484340591","title":"Plant Growth and Metabolism","description":"The cluster shows plant development terms (leaf morphogenesis, flower development) alongside metabolic and stress-response processes (carbohydrate/glycoside catabolism, oxidative stress, and cell division), suggesting a cohesive module related to growth and energy management in plants. Some terms are less plant-specific, but the dominant pattern aligns with development and metabolism.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0009965","count":1},{"id":"GO:0046477","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0005975","count":1}]},{"hash":"54833512905517351","title":"RNA Pol II Transcription Regulators in Neural Development","description":"This cluster centers on GO terms for regulation of transcription and DNA binding, including DNA-templated transcription and RNA Pol II\u2013related regulation, pointing to transcription factors or regulators. The presence of neural-development related terms such as memory, myelination in the peripheral nervous system, and muscle cell fate specification suggests these regulators act in neural differentiation or neuronal function. With several transcription-related terms dominating the top terms, the label reflects the main functional theme despite some peripheral terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0043547","count":2}]},{"hash":"19009433740270048","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038163","count":1},{"id":"GO:0048599","count":1},{"id":"GO:0006513","count":1},{"id":"GO:0007276","count":1},{"id":"GO:0006281","count":1}]},{"hash":"984631379662715406","title":"PI signaling, vision, and development","description":"The top GO terms point to phosphatidylinositol-mediated signaling, visual perception (opsin pathway), and development (heart development), with supporting processes in intracellular signaling, cell cycle, and extracellular matrix remodeling. This pattern suggests a cluster centered on signaling networks that drive sensory/visual pathways and organ development, with some involvement in cell division and matrix dynamics. Therefore the label captures the core theme of signaling linked to vision and developmental processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":3},{"id":"GO:0022400","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035556","count":2}]},{"hash":"280416163803254395","title":"Brain development and synaptic function","description":"The cluster is enriched for brain development, sensory perception of sound, synapse assembly, and GABAergic transmission, with cadherin-mediated adhesion and myelin maintenance supporting neural connectivity, pointing to neural development and synaptic organization as the common theme.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0045730","count":2},{"id":"GO:0007605","count":2}]},{"hash":"2159910629877285058","title":"RNA Processing and Translational Control","description":"The proteins cluster around RNA metabolism (alternative splicing, small-subunit processome assembly, mRNA stabilization, regulatory ncRNA-mediated silencing) and translation control (translation reinitiation, IRES-dependent viral translation, viral termination-reinitiation), suggesting a shared role in RNA processing and regulation of translation, including viral contexts.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0048255","count":2}]},{"hash":"1773413559254843467","title":"Neural reflexes and synaptic signaling","description":"The dominant GO terms cluster around nervous system function: neuromuscular control of posture, startle and righting reflexes, sensory perception of sound, and regulation of respiration by the nervous system, combined with synaptic signaling such as glycinergic transmission and serotonin receptor pathways, and excitatory postsynaptic potentials. This points to a cohesive theme of neural signaling, reflexes, and motor control driving the cluster. Some metabolic/transport terms are present but appear ancillary to the main neurological theme.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0001964","count":1},{"id":"GO:0007605","count":1}]},{"hash":"706594094607517966","title":"Developmental Regulation and Immune Signaling","description":"This cluster includes GO terms tied to multiple developmental processes (heart, placenta, cartilage, spermathecum morphogenesis) alongside transcriptional regulation and immune/stress responses (LPS response, cytokine production, interferon regulation, circadian rhythm). The common theme appears to be broad regulatory roles that connect development with immune signaling and stress responses, rather than a single precise pathway.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0035211","count":3},{"id":"GO:0001893","count":3}]},{"hash":"2157467737685464319","title":"Heart development and vascular regulation","description":"This cluster is dominated by cardiovascular-related GO terms: heart development, positive regulation of blood pressure, vasoconstriction, and prostaglandin signaling, indicating a focus on heart function and vascular regulation. Additional terms related to metabolism and energy (electron transport chain, diet-induced thermogenesis) suggest heart energy metabolism as a supporting theme. Overall, the shared function appears to center on cardiovascular development/regulation with metabolic context.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048496","count":2},{"id":"GO:0043278","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0022900","count":2},{"id":"GO:0071380","count":2}]},{"hash":"409762470585883634","title":"Unknown","description":"The GO terms are highly diverse, spanning immune activation, neural and sensory development, reproductive differentiation, and organ morphogenesis, with no single cohesive function tying the proteins together. This lack of a common theme makes a specific, representative label unreliable.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0021988","count":2},{"id":"GO:0021772","count":2},{"id":"GO:0060370","count":2}]},{"hash":"1398369176854384932","title":"Carbohydrate transport and osmotic stress response","description":"The proteins are enriched for sugar-related transport and metabolism terms (glucose/fructose/xylose transport, lactose biosynthesis, L-ascorbic acid metabolism/dehydroascorbic acid transport), along with phosphate transport and a notable osmotic stress response term. This points to a cohesive theme around carbohydrate transport/metabolism and osmotic adjustment, with some involvement in vitamin C-related transport. Overall, the cluster seems to represent carbohydrate transport and osmotic stress handling.","confidence":"High","size":11,"edges":16,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":9},{"id":"GO:0071332","count":9},{"id":"GO:0019852","count":9},{"id":"GO:0043252","count":9},{"id":"GO:0005989","count":9}]},{"hash":"2204363756673158752","title":"Neural adhesion and junctions","description":"This cluster is dominated by GO terms for cell adhesion and junction assembly (paranodal junction assembly, cell adhesion, heterophilic cell-cell adhesion, AV node adhesion), with neural development terms (olfactory lobe/bulb development) and related morphogenesis signaling, suggesting a theme of neural tissue organization and connectivity mediated by adhesion molecules. The outlier term about symbiont entry into host cells is less consistent with the main theme but may reflect shared adhesion mechanisms. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0007157","count":2}]},{"hash":"799107606872732001","title":"Ubiquitin-Mediated Antiviral Defense","description":"This cluster's strongest terms point to ubiquitin-dependent protein catabolic processes and K33-linked ubiquitination, alongside defense and innate immune responses to viruses, suggesting a theme of ubiquitin-regulated antiviral immunity. Some other GO terms appear unrelated (e.g., flower development, muscle differentiation), likely representing noise or annotation cross-talk, so the core signal is ubiquitin-related immune processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0031591","count":3},{"id":"GO:0035914","count":3}]},{"hash":"335580845755661059","title":"Mitochondrial Energy Metabolism and GPCR Signaling","description":"The cluster\u2019s terms center on mitochondrial energy production (electron transport chain, thermogenesis, membrane potential) and GPCR-mediated signaling (adenylate cyclase activation), with downstream cardiovascular/renal physiology implications (blood pressure, glomerular filtration). This combination suggests a theme of energy metabolism integrated with signaling pathways that govern physiological regulation, making the label representative. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0002024","count":6}]},{"hash":"331582950088764814","title":"Metabolic and Cellular Signaling Proteins","description":"The cluster shows enrichment for carbohydrate metabolism (glycine betaine and homocysteine pathways), proteolysis, and responses to calcium and nitric oxide, along with a cell-cell adhesion term. While some terms are obsolete, the common thread appears to be core metabolic processes linked to cellular signaling and adhesion, rather than a single dedicated pathway. ","confidence":"Medium","size":11,"edges":48,"triangles":114,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":1},{"id":"GO:0036065","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0007157","count":1},{"id":"GO:0070267","count":1}]},{"hash":"2009602253041999406","title":"Ion and nutrient membrane transporters","description":"Based on the top GO terms, this cluster centers on transmembrane transport of diverse substrates\u2014ions (sodium, potassium), nutrients (nitrate, sialic acid, vitamins), and xenobiotics\u2014with at least one term pointing to neurotransmitter loading into synaptic vesicles. The unifying theme is membrane transporter proteins that move a variety of substrates across membranes, rather than a single substrate or process.","confidence":"High","size":11,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015739","count":3}]},{"hash":"1973269443701828835","title":"Unknown","description":"The top GO terms span diverse processes such as retina vascular development, hormone and vitamin biosynthesis, digestive tract development, and various biosynthetic pathways, with no single shared function dominating. The absence of edges and a coherent theme makes it inappropriate to assign a specific label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":8},{"id":"GO:0061370","count":8},{"id":"GO:0048565","count":8},{"id":"GO:0036378","count":8},{"id":"GO:0009624","count":8}]},{"hash":"2046861625380755184","title":"Developmental signaling and ECM remodeling","description":"The GO terms strongly point to extracellular matrix interactions and signaling in development (integrin-mediated signaling, hyaluronan metabolism, metallopeptidase activity) with developmental outcomes such as endocardial cushion development and crystal cell differentiation. Additional terms related to neural regeneration and immune sensing (dendrite regeneration, response to muramyl dipeptide) fit within broader remodeling and signaling roles across tissues. This suggests a coherent theme of development and tissue remodeling rather than a single narrow function.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":4},{"id":"GO:0032495","count":4},{"id":"GO:0071372","count":4},{"id":"GO:0043065","count":3},{"id":"GO:1905050","count":3}]},{"hash":"2079950608466104490","title":"Unknown","description":"The top GO terms cover very different processes (bacterial lipopolysaccharide biosynthesis, multiple metabolism pathways, actin cytoskeleton assembly, DNA replication/repair, platelet aggregation) with no clear shared function, suggesting the cluster is functionally heterogeneous or mixed in origin. ","confidence":"","size":10,"edges":12,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0009744","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0032508","count":2}]},{"hash":"779212549112804949","title":"Unknown","description":"The top GO terms are highly diverse and do not point to a single shared function. They span translation, tissue regeneration, various catabolic and biosynthetic processes (glucarate, galactonate, menaquinone, phylloquinone), and cell wall organization, suggesting no clear functional theme for the cluster.","confidence":"","size":10,"edges":9,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0043403","count":1},{"id":"GO:1903298","count":1},{"id":"GO:0019394","count":1},{"id":"GO:0032889","count":1}]},{"hash":"394783340035281465","title":"Immune signaling and transcriptional regulation","description":"The terms cluster around immune and stress signaling (lipopolysaccharide response, GM-CSF, T cell receptor signaling, TGF-\u03b2) and downstream transcriptional changes (DNA-templated transcription), with supporting signaling events (protein autophosphorylation) and broader stimulus responses (xenobiotic, epinephrine). This suggests a cohesive function in sensing external cues and enacting transcriptional programs, despite the presence of a couple of non-immune terms like DNA replication. Overall, the dominant theme is immune signaling linked to transcriptional regulation.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071222","count":4},{"id":"GO:0071872","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1059339896232161482","title":"Lipid and steroid biosynthesis","description":"The terms are heavily skewed toward lipid-derived signaling and steroid biosynthesis (prostaglandins/oxylipins, cholesterol/vitamin D, testosterone), suggesting a lipid/metabolic hormone theme; a few outliers (macrolide/alkaloid biosynthesis and some developmental terms) exist but do not override the core signal.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":6},{"id":"GO:0061298","count":5},{"id":"GO:0061370","count":5},{"id":"GO:0048565","count":5},{"id":"GO:0036378","count":5}]},{"hash":"12792449342891957","title":"Innate antiviral defense and oxidative stress response","description":"This cluster centers on innate antiviral defense and oxidative stress responses (defense response to virus, innate immune response, cellular response to hydrogen peroxide, cellular response to oxidative stress). Peroxisomal protein import terms and related oxidative-stress processes support this theme, while some DNA replication and cell division terms appear incidental.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0016558","count":2}]},{"hash":"1606723089743742318","title":"Neuronal pain sensing and synaptic plasticity regulation","description":"The cluster shows enrichment for neuronal and synaptic functions: detection of mechanical stimulus involved in pain, regulation of synaptic plasticity via receptor localization to the synapse, and regulation of dendrite development. While cell cycle terms appear, the dominant theme centers on sensory neuron signaling and plasticity rather than proliferation. This supports labeling the cluster as neuronal pain sensing and synaptic plasticity regulation. ","confidence":"Medium","size":10,"edges":9,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050966","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1953423340335106050","title":"Unknown","description":"The terms span mitosis, neural/visual processes, development (lung morphogenesis), apoptosis, RNA processing, chromosomal segregation, protein targeting, and immune differentiation, with no single dominant biological theme. This diversity suggests the proteins belong to multiple, unrelated pathways rather than one cohesive function, so a unified label is not evident.","confidence":"","size":10,"edges":8,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0042220","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0006915","count":6}]},{"hash":"1630680386968679539","title":"Cell Cycle Control and Intracellular Trafficking","description":"This cluster combines cell-cycle control (spindle orientation, regulation of the cell cycle), transcriptional regulation, protein turnover (ubiquitin-dependent degradation, apoptosis control), and intracellular trafficking (ER-Golgi transport, intraciliary transport, phagolysosome assembly). The common thread is coordinating cell division with protein homeostasis and vesicle trafficking.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0035721","count":2},{"id":"GO:0043066","count":2}]},{"hash":"789077529846830582","title":"Unknown","description":"The top GO terms span mRNA splicing, ubiquitination, nutrient and growth signaling (including TORC1 and glucose signaling), actin cytoskeleton remodeling, neuron projection development, growth hormone response, mitotic cohesion, and sensory processes, with no single dominant function tying them together.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0007584","count":7},{"id":"GO:0034314","count":7},{"id":"GO:0031175","count":7}]},{"hash":"1018095170566526637","title":"Immune signaling and antigen presentation","description":"This cluster centers on immune signaling and antigen processing. It includes T cell receptor signaling, stimulatory C-type lectin receptor signaling, and MHC class I antigen presentation (TAP-dependent), indicating coordinated adaptive and innate immune responses. The presence of protein deubiquitination and regulation of endopeptidase activity points to control of signaling cascades, while related terms like response to salt stress and zinc ion suggest modulation by cellular stress conditions.","confidence":"High","size":10,"edges":33,"triangles":51,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":6},{"id":"GO:0090090","count":4},{"id":"GO:0006521","count":4},{"id":"GO:0002223","count":4},{"id":"GO:0009651","count":4}]},{"hash":"2106737199190079258","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for ribosome-related processes: ribosome biogenesis, ribosomal small subunit biogenesis, translation, and maturation of SSU-rRNA. The co-occurrence of development-related terms (spermatid development, adult somatic muscle development, dendritic spine development) and vesicle transport terms likely reflects proteins with additional roles rather than a second distinct theme. Overall, the core signal points to ribosome assembly and protein synthesis as the defining function of this cluster.","confidence":"High","size":10,"edges":6,"triangles":4,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006890","count":2}]},{"hash":"1917173827605194239","title":"Unknown","description":"The GO terms cover xenobiotic response, apoptosis, DNA processing, hormone signaling, and other diverse processes, with no single unifying function apparent. The sparse network (max degree 1) and presence of obsolete terms further suggest the cluster is compositionally heterogeneous rather than a coherent pathway.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0006308","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0071375","count":2}]},{"hash":"1141723547706165895","title":"Unknown","description":"The GO terms are scattered across apoptotic/DNA processing, hormone response, RNA stability, and skin/renal processes with only singleton associations, giving no clear shared function for the cluster.","confidence":"","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0071375","count":1},{"id":"GO:2000327","count":1}]},{"hash":"1528835901642336309","title":"Mesodermal development and hair follicle morphogenesis","description":"This cluster is enriched for developmental and morphogenesis-related terms: mesoderm development, hair follicle morphogenesis, epithelial-to-mesenchymal transition in endocardial cushion formation, and endocrine system development, suggesting a shared theme of tissue development and morphogenesis. Some terms are obsolete or broad (e.g., spliceosome-related processes), so the core signal points to developmental processes rather than a single molecular function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051220","count":10},{"id":"GO:0036086","count":10},{"id":"GO:0000398","count":10},{"id":"GO:0010957","count":10},{"id":"GO:1903026","count":10}]},{"hash":"1625874296368388569","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034965","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0001682","count":1},{"id":"GO:1905267","count":1},{"id":"GO:0046485","count":1}]},{"hash":"543861128759012148","title":"RNA and Protein Methyltransferases","description":"The terms center on various methylation processes: rRNA, tRNA, and mRNA methylation/capping, plus protein lysine/arginine methylation and chromatin-related methylation. This points to a cluster of enzymes that transfer methyl groups to nucleic acids, proteins, or chromatin-associated substrates, i.e., RNA and protein methyltransferases.","confidence":"High","size":10,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":8},{"id":"GO:0018027","count":7},{"id":"GO:0018013","count":5},{"id":"GO:0018023","count":4},{"id":"GO:0000183","count":4}]},{"hash":"1086393379156823423","title":"Transmembrane Transporters","description":"The top GO terms are dominated by diverse transmembrane transport activities (xenobiotic, sodium ion, sialic acid, vitamin, 4-hydroxyphenylacetate, etc.) and vesicular neurotransmitter loading, pointing to a cluster enriched for membrane transport proteins. A couple of adhesion/blood vessel terms appear less central, but the transport theme is clearly prevalent and representative of the cluster\u2019s function.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":2},{"id":"GO:0044331","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1569315016203158497","title":"Ribosome biogenesis and cell division","description":"The cluster is dominated by terms for ribosome biogenesis and cell division (mitotic cell cycle, spindle/meiotic assembly, ribosomal export), with supporting terms for cytokinesis and meiosis. Some neuronal/ciliary terms appear but likely reflect shared cytoskeletal functions rather than a separate pathway.","confidence":"Medium","size":10,"edges":26,"triangles":28,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0031175","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000747","count":5}]},{"hash":"1122821988747055090","title":"Neurodevelopmental and organ development signaling","description":"The cluster's top GO terms cluster around nervous system development (including brain development) and organogenesis across heart and kidney, plus key signaling pathways such as Smoothened (Hedgehog) and Roundabout, indicating a unifying theme of developmental signaling guiding neural and organ formation. A few terms like T cell receptor signaling suggest broader signaling roles but the dominant pattern is developmental processes. ","confidence":"High","size":10,"edges":36,"triangles":65,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0007224","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0035385","count":5},{"id":"GO:0050852","count":5}]},{"hash":"537073082448159586","title":"Cardiovascular and Inner Ear Development","description":"The top GO terms point to development and maturation of heart-related tissues (ventricular action potential regulation; Purkinje myocyte development), inner ear structures (sensory perception of sound; inner ear development), and vascular biology (blood vessel maturation; endothelial barrier establishment), along with cell adhesion and cytoskeletal organization involved in morphogenesis. This pattern suggests a cluster of proteins involved in organ development and tissue morphogenesis across cardiac, vascular, and sensory systems rather than a single, narrow pathway, so a label reflecting broad developmental processes in these tissues fits best.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098911","count":4},{"id":"GO:0001955","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0044331","count":4},{"id":"GO:0007605","count":3}]},{"hash":"1267156105027560929","title":"Developmental morphogenesis signaling","description":"These terms cluster around developmental signaling and morphogenesis across tissues: adhesion-dependent spreading supports cell movement; branching morphogenesis reflects epithelial remodeling; ephrin signaling guides cell positioning; retinoic acid response and axonogenesis indicate neuronal and patterning processes; thymus development and T cell proliferation reflect immune tissue patterning; and calcium signaling with protein dephosphorylation underlines active signaling cascades. Together they suggest coordinated signaling networks governing tissue development and morphogenesis across contexts.","confidence":"Medium","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034446","count":7},{"id":"GO:0060444","count":7},{"id":"GO:0048013","count":7},{"id":"GO:0048538","count":7},{"id":"GO:0043552","count":7}]},{"hash":"1010421182954990312","title":"RNA granule assembly and intracellular transport","description":"Top GO terms cluster around RNA granules and intracellular transport, including stress granule assembly, P-body assembly, and various vesicle/axonal transport processes (dense core vesicle transport, intraciliary transport) as well as spindle localization. While developmental terms are present, the strongest common theme across these annotations is the organization of RNA/protein granules and movement of cellular cargo, i.e., stress-related RNA dynamics and transport.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042475","count":2},{"id":"GO:0043627","count":2},{"id":"GO:0002009","count":2},{"id":"GO:0085014","count":1},{"id":"GO:0006950","count":1}]},{"hash":"2031731079778845696","title":"GTPase-Regulated Actin Remodeling","description":"The cluster\u2019s top terms cluster around actin cytoskeleton dynamics and small GTPase signaling (dendritic spine morphogenesis; actin filament polymerization; lamellipodium assembly; small GTPase\u2013mediated signal transduction; positive regulation of GTPase activity). This suggests a shared function in remodeling the cytoskeleton under GTPase control, relevant to neuronal connectivity and cell motility. A few terms (subtelomeric heterochromatin formation, IL-4 production, B cell maturation, insulin signaling, myelin maintenance) appear as broader signaling or cell-type contexts but do not override the dominant actin/GTPase theme.","confidence":"High","size":10,"edges":23,"triangles":26,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0030041","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0032287","count":6}]},{"hash":"319121331902783396","title":"Calcium and Metal Ion Homeostasis","description":"The top terms show strong signals for calcium ion homeostasis and ER calcium regulation (e.g., smooth ER calcium homeostasis, regulation of calcium import), with additional cues for metal ion responses (copper, lead). Development terms are present but less dominant, so the shared theme most plausibly centers on ion homeostasis, especially calcium handling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0051563","count":1},{"id":"GO:0006878","count":1}]},{"hash":"918347148396846401","title":"Auditory and Neural Ear Development","description":"The cluster is dominated by GO terms for sensory perception of sound and inner ear development, with supporting neural development and cell\u2013cell adhesion terms, suggesting a cohesive theme around the formation and function of auditory structures and related neural connectivity.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":10},{"id":"GO:0007626","count":10},{"id":"GO:0048839","count":8},{"id":"GO:0003165","count":8},{"id":"GO:0090176","count":8}]},{"hash":"421754333651931891","title":"Chromatin Organization and Nucleosome Assembly","description":"The top GO terms are dominated by chromatin-related processes: nucleosome assembly, heterochromatin organization, establishment of protein localization to chromatin, and regulation of nucleus size. This points to a core theme of chromatin structure and regulation, which unifies the cluster. A few terms about pancreatic beta-cell development and insulin secretion appear as outliers but do not override the main chromatin-centric pattern.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035774","count":1},{"id":"GO:2000078","count":1},{"id":"GO:0097298","count":1},{"id":"GO:0016584","count":1},{"id":"GO:0060038","count":1}]},{"hash":"885663497955881197","title":"Vascular signaling and blood pressure regulation","description":"The cluster\u2019s top GO terms cluster around cardiovascular signaling: regulation of membrane potential, positive regulation of vasoconstriction, platelet activation, and especially regulation of systemic arterial blood pressure via the renin-angiotensin system, along with ERK signaling and GPCR-related cross-talk. These collectively point to vascular tone control, platelet function, and kidney-mediated regulation of blood pressure. A few terms like light absorption and heat generation are less directly related and may be incidental, but the dominant theme remains cardiovascular signaling and hemodynamics.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042391","count":4},{"id":"GO:0045907","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0030168","count":4},{"id":"GO:0003093","count":3}]},{"hash":"1093703825003236236","title":"Cardiovascular GPCR Signaling","description":"This cluster\u2019s top GO terms revolve around GPCR-mediated signaling that regulates cardiovascular function: blood pressure control via renin-angiotensin, vasoconstriction, heart rate modulation by catecholamines, and dopaminergic/opioid receptor signaling, including GPCR transactivation. A couple terms about light absorption and heat generation are outliers, but the prevailing pattern is GPCR-driven cardiovascular and neuroendocrine signaling, justifying this label.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003093","count":10},{"id":"GO:0045907","count":10},{"id":"GO:0031649","count":10},{"id":"GO:0016038","count":10},{"id":"GO:1900453","count":10}]},{"hash":"108542227912003771","title":"Developmental cytoskeletal signaling and cell migration","description":"Top GO terms point to cytoskeletal dynamics (positive regulation of GTPase activity, intermediate filament bundle assembly, cell migration) and signaling (phosphorylation, phosphatidylinositol phosphate biosynthesis), together with development-related processes (cranial skeletal system development, maintenance of animal organ identity) and innate immunity. This pattern suggests a module where signaling drives cytoskeletal remodeling to enable cell movement and tissue patterning, potentially including neural crest/cranial development and immune cell migration.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:1904888","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0046854","count":2}]},{"hash":"496672796777169663","title":"Translation and Trafficking Machinery","description":"The cluster is enriched in GO terms for translation initiation and reinitiation, mRNA export, and splicing regulation, alongside Golgi-to-endosome transport and endocytosis. This combination suggests a module centered on core protein synthesis processes coupled with intracellular cargo trafficking. The label highlights the two most represented themes\u2014translation-related steps and vesicular transport\u2014while acknowledging that cell cycle terms indicate broader housekeeping roles. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006406","count":2}]},{"hash":"397071472033389308","title":"Chromosome segregation and mitotic regulation","description":"Based on the top GO terms, the proteins are mainly linked to chromosome dynamics and mitotic control: sister chromatid biorientation and cohesion, spindle orientation checkpoint signaling, and protein localization to chromosomes. These core processes point to chromosome segregation during cell division as the cluster\u2019s primary theme. A few terms reference broader processes like P granule assembly and septin ring disassembly, suggesting additional structural roles in cell division, while others (protein dephosphorylation, signal transduction) indicate regulatory layers. Overall, the common thread is chromosome-focused mitotic regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031134","count":1},{"id":"GO:0090219","count":1},{"id":"GO:0051754","count":1},{"id":"GO:1903863","count":1},{"id":"GO:0031578","count":1}]},{"hash":"1539297030893837201","title":"Metabolism-Responsive Chromatin Transcription","description":"The dominant terms center on transcription regulation by RNA polymerase II, chromatin localization, and metabolic signaling (cAMP, insulin) with linked metabolic processes, suggesting a metabolism-linked chromatin-transcription module.","confidence":"High","size":9,"edges":15,"triangles":10,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0051591","count":2},{"id":"GO:0032869","count":2}]},{"hash":"1056970023406942019","title":"Ubiquitin-Dependent Proteolysis Network","description":"The proteins are dominated by ubiquitination-related processes (autoubiquitination, K63-linked ubiquitination, ERAD, N-end rule pathway) and broader proteolytic/degradative signaling, with additional links to apoptosis and development, suggesting a coherent theme of ubiquitin-mediated protein turnover and regulatory signaling.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":9},{"id":"GO:0070911","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0006915","count":8},{"id":"GO:0010845","count":8}]},{"hash":"802011812344267643","title":"Microtubule Dynamics and Centrosome Separation","description":"This cluster centers on microtubule cytoskeleton regulation, with GO terms for establishing microtubule polarity, minus-end directed sliding, depolymerization in cytoplasmic and axonemal contexts, and mitotic centrosome separation. These collectively point to proteins coordinating microtubule organization during cell division and ciliogenesis, with a few outliers (e.g., karyogamy) that are less representative but still linked to microtubule processes.","confidence":"High","size":9,"edges":22,"triangles":18,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":4},{"id":"GO:0006469","count":3},{"id":"GO:0030951","count":2},{"id":"GO:0021693","count":2},{"id":"GO:0060404","count":2}]},{"hash":"1592926383620228202","title":"Developmental morphogenesis and tissue differentiation","description":"Top GO terms are dominated by multicellular organism development, skeletal system development, forebrain development, and secretory epithelial differentiation, pointing to roles in developmental processes and tissue morphogenesis. Although a few terms touch on defense or hypoxia, the strongest signal is toward growth and differentiation of tissues, including epithelial and neural/skeletal lineages. The presence of Arp2/3 mediated actin nucleation suggests cytoskeletal remodeling during morphogenesis, supporting a cohesive theme of developmental differentiation rather than immune response.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0007568","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0001501","count":4}]},{"hash":"1451562820427611426","title":"Calcium-Dependent Neuronal Signaling and Development","description":"Based on the concentration of calcium-related terms (calcium ion detection, calcium-modulated Wnt pathway, regulation of synaptic vesicle exocytosis, excitatory postsynaptic potential) and neural-related functions (long-term memory), the cluster seems to be centered on calcium-dependent neural signaling and maturation; bone and connective tissue terms are present but appear less central to the dominant neural signaling theme.","confidence":"High","size":9,"edges":26,"triangles":39,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043931","count":8},{"id":"GO:0072221","count":7},{"id":"GO:0007275","count":7},{"id":"GO:1905205","count":6},{"id":"GO:0007616","count":6}]},{"hash":"462472314130644361","title":"Organ morphogenesis and cell cycle regulation","description":"The cluster mixes tissue morphogenesis terms (lung and tricuspid valve morphogenesis) with core cellular processes (DNA replication, chromosome separation, apoptosis, mRNA processing) and cellular logistics (protein targeting to membrane, endosome transport). This suggests a theme centered on developmental organ formation occurring alongside cell proliferation and gene expression control, with some trafficking components. ","confidence":"Medium","size":9,"edges":11,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0006397","count":7},{"id":"GO:0060425","count":7},{"id":"GO:0051304","count":7}]},{"hash":"1107821523524913432","title":"Negative regulation of MAPK and immune signaling","description":"This label fits because many top terms point to inhibiting ERK/MAPK cascades and immune pathways (negative regulation of T cell receptor signaling, IL-6/IL-2 signaling), with a few terms linking to cell adhesion/platelet formation, indicating a broader role in dampening signaling and modulating immune\u2013cell interactions.","confidence":"High","size":9,"edges":31,"triangles":59,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":7},{"id":"GO:0070373","count":7},{"id":"GO:0050860","count":7},{"id":"GO:0030220","count":6},{"id":"GO:2000646","count":6}]},{"hash":"1548479671579758529","title":"Ubiquitin-Dependent NF-\u03baB Signaling","description":"The top GO terms center on ubiquitin-mediated processes (K48-linked ubiquitination, ubiquitin-dependent ERAD) and core NF-\u03baB pathway activation (NIK activity, I\u03baB phosphorylation), suggesting a cohesive theme around ubiquitin-driven regulation of NF-\u03baB signaling. Some terms are obsolete or unrelated, indicating noise, but the strongest signal is ubiquitin-dependent degradation linked to NF-\u03baB regulation.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0070936","count":3},{"id":"GO:2000620","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0090073","count":3}]},{"hash":"1094285494080955583","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related GO terms: axonogenesis, excitatory postsynaptic potential, long-term synaptic potentiation, and visual perception, along with Schwann cell development, pointing to roles in neural development and synaptic function. Regulatory processes like phosphorylation and protein export from the nucleus may reflect broader developmental signaling, while terms like mitotic cell cycle and angiogenesis are less central but can accompany developing neural tissues. Overall, the theme centers on neural development and synaptic signaling.","confidence":"Medium","size":9,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":4},{"id":"GO:0060079","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0010800","count":3}]},{"hash":"1772438730744805445","title":"Nucleotide Salvage and Interconversion","description":"This cluster is best labeled by the concentration of GO terms related to nucleotide salvage and interconversion: guanosine salvage, uridine and cytidine catabolic processes, nicotinate nucleotide salvage, pyrimidine nucleobase metabolism, and nucleobase interconversion. These terms suggest a shared function in reclaiming and reorganizing nucleotides and nucleobases, with NAD biosynthesis via salvage pathways also aligning with this theme. The cell-cycle term (G1/S transition) could reflect coordination between nucleotide supply and DNA replication but does not outweigh the dominant nucleotide metabolism signal. Therefore, the label captures the core functional thread across the proteins.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006218","count":2},{"id":"GO:0006179","count":2}]},{"hash":"243408613210005494","title":"Redox homeostasis and detoxification","description":"This cluster is dominated by redox-related GO terms: cellular oxidant detoxification and cell redox homeostasis, indicating a shared role in managing oxidative stress. The presence of several development terms may reflect broader multifunctionality, but redox balance appears to be the core theme. ","confidence":"High","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0030416","count":3},{"id":"GO:0055114","count":3},{"id":"GO:2000255","count":3}]},{"hash":"624514802658188287","title":"Virus-host interaction and replication","description":"The top terms center on viral entry, uncoating, viral life cycle, proviral latency, and host-mediated activation of viral genome replication, with RNA-templated DNA synthesis suggesting retroviral replication. A plant sepal term appears as noise, but the dominant signal points to virus\u2013host interaction and replication dynamics.","confidence":"High","size":9,"edges":8,"triangles":2,"max_degree":3,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":4},{"id":"GO:0048453","count":3},{"id":"GO:0019061","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0044829","count":3}]},{"hash":"2198920685734823814","title":"Embryonic tissue morphogenesis and patterning","description":"Most terms cluster around development and tissue formation: left-right patterning, organ morphogenesis (hair follicles, cartilage, palate), endocardial cushion EMT, endocrine system development, and broader embryonic patterning and placentation. The spliceosome term likely reflects essential RNA processing linked to gene expression during development. Together, these suggest a theme of embryonic morphogenesis and pattern formation.","confidence":"High","size":9,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0010957","count":7},{"id":"GO:0060972","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060021","count":7}]},{"hash":"1103288404391342084","title":"RNA processing and translation","description":"This cluster centers on RNA metabolism and protein synthesis, with strong representation of mRNA export, splicing, stabilization, and translation-related processes (reinitiation, ribosome biogenesis). Development-related terms are present but the core signal is RNA processing and ribosome-associated steps.","confidence":"Medium","size":9,"edges":11,"triangles":3,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0042254","count":2},{"id":"GO:2000676","count":2},{"id":"GO:0001824","count":2},{"id":"GO:1901407","count":2}]},{"hash":"754124189957607286","title":"Nuclear transcription and RNA processing cluster","description":"The majority of terms point to nuclear gene expression processes (DNA-templated transcription, Pol II transcription regulation, tRNA processing, splicing factor import, hnRNP/mRNA-binding protein import, and nuclear export). The neuronal terms appear as outliers. This suggests a cluster of proteins involved in regulating transcription and RNA processing within the nucleus.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000055","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0008033","count":1}]},{"hash":"1567839506105744148","title":"Synaptic Receptor Trafficking and Golgi Transport","description":"The set is enriched for neuronal synaptic processes (long-term potentiation, exocytic insertion of neurotransmitter receptors) and for intracellular trafficking steps (ER-to-Golgi, Golgi ribbon formation, intra-Golgi transport), suggesting proteins clustered around receptor delivery to the postsynaptic membrane and related secretory pathway functions; ECM-related terms may reflect remodeling contexts tied to synaptic changes.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0050908","count":2},{"id":"GO:0007596","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0030212","count":2}]},{"hash":"440755463207303784","title":"Embryonic organ development","description":"The GO terms cluster around development and morphogenesis across multiple organs during embryogenesis (heart, foregut, lung, pancreas, cranial skeleton, and body patterning), indicating a general role in embryonic organogenesis rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060038","count":3},{"id":"GO:0046881","count":3},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0003198","count":2}]},{"hash":"815396245560769129","title":"Neuronal development and synaptic adhesion","description":"The top terms cluster around neuron\u2013neuron adhesion, synaptic vesicle clustering, and localization to the synapse, with brain and inner ear development and locomotory behavior. This points to a coherent theme of neuronal development and synaptic organization, including cell-adhesion-mediated synaptic contacts and maintenance of neuronal stem cell populations.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007158","count":5},{"id":"GO:2000809","count":5},{"id":"GO:1902474","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0048839","count":5}]},{"hash":"1986121339862912991","title":"Unknown","description":"The GO terms are spread across unrelated biosynthetic and metabolic processes (mitochondrial complex IV assembly, sterol/ergosterol metabolism, various sugar and polyphenol biosyntheses, LPS core biosynthesis) and cytolysis, with no clear common function linking the proteins. Therefore, no cohesive theme is identifiable for a precise label.","confidence":"","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":1},{"id":"GO:0019835","count":1},{"id":"GO:0016126","count":1},{"id":"GO:0019305","count":1},{"id":"GO:0009718","count":1}]},{"hash":"874925291076064761","title":"Multisystem Development","description":"The cluster\u2019s top terms are dominated by broad developmental processes across multiple organs and tissues (eye/retina, brain, heart, pharyngeal system, gonads) plus general multicellular development and related processes like fertilization and cell division, indicating a general development-focused group rather than a single specific pathway.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007601","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0007338","count":2}]},{"hash":"505940052041549543","title":"Mitotic Cell Cycle Regulation","description":"This cluster centers on GO terms tied to cell cycle progression and mitosis, including G1/S and G2/M transitions, mitotic spindle pole separation, chromosome condensation (histone H3-S10), and general mitotic cell cycle processes, with an additional link to transcriptional control (DNA-templated transcription). The recurring theme is regulation of mitosis and cell proliferation, sometimes via signaling pathways (Rho, insulin signaling) that influence cycle progression. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0010696","count":3},{"id":"GO:0033598","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0046626","count":3}]},{"hash":"1394942790876836269","title":"Neural and inner ear development","description":"This cluster is characterized by terms for brain and inner ear development, sensory perception of sound, Purkinje cell development, neuronal adhesion, and planar polarity processes related to hair cells, pointing to a cohesive theme of neural-auditory development.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0007605","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0003165","count":3},{"id":"GO:0090176","count":3}]},{"hash":"928225342844738955","title":"Neural development and sensory signaling","description":"The top GO terms cluster around nervous system development and sensory functions, including optic nerve morphogenesis, retinal ganglion cell axon guidance, sensory perception of sound, regulation of synaptic plasticity via receptor localization to synapse, and ephrin signaling. While some terms touch on broader embryonic development (notochord, skeletal development), the dominant theme is neural/sensory development and signaling pathways. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0021631","count":3},{"id":"GO:0031290","count":3}]},{"hash":"897299037930958970","title":"Iron Homeostasis and Transport","description":"This cluster is dominated by iron-related processes: detoxification of iron ion, iron ion transport, and siderophore-iron import into cell, pointing to a core theme of iron metabolism and import. While there are some unrelated terms (sumoylation, chromosome condensation, oxidation-reduction), the iron-centric terms are the most represented, supporting a label focused on iron homeostasis with a secondary note that other functions may be incidental.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0032088","count":2},{"id":"GO:1904234","count":1},{"id":"GO:1990461","count":1},{"id":"GO:0030261","count":1}]},{"hash":"1577933862545430257","title":"Translation initiation and GTPase signaling","description":"This cluster shows enrichment for positive regulation of GTPase activity and components related to translation initiation (formation of translation preinitiation complex and translation reinitiation), suggesting a core theme around gene expression control at both signaling and translational levels. The presence of development and immune-related terms likely reflects broader or pleiotropic annotations rather than a single cohesive pathway, so the label emphasizes the strongest shared signals. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0001878","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0050830","count":2}]},{"hash":"2192805359074449696","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":2},{"id":"GO:0080110","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0009244","count":2},{"id":"GO:0042351","count":2}]},{"hash":"1130936116329850366","title":"Neural development and sensory-motor signaling","description":"The terms cluster around nervous system development and sensory/motor functions: optic nerve morphogenesis and retinal ganglion cell axon guidance point to visual system development; sensory perception of sound and locomotory behaviors (including startle and righting reflexes) indicate sensory-motor processing; serotonin receptor signaling and regulation of neuron survival further reflect neural signaling. Together, these terms suggest a cluster focused on neural development with sensory and motor signaling roles.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0002087","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0043524","count":2}]},{"hash":"979437590281857860","title":"Inflammation and renal-vascular signaling","description":"The top GO terms center on inflammatory response and regulation of kidney filtration and cardiovascular tone (renin-angiotensin\u2013driven blood pressure, vasoconstriction), plus GPCR-related signaling including dopamine receptor pathways. This suggests a cluster of proteins involved in inflammatory processes that interface with renal and vascular regulation. Some terms (heat generation, light absorption) seem peripheral or annotation artifacts. Overall, the cluster points to inflammatory signaling linked to vascular/renal control rather than a single cohesive pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0070257","count":3},{"id":"GO:0003093","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0031649","count":2}]},{"hash":"1955682697419400566","title":"Transcriptional Regulation and Development Signaling","description":"The cluster mixes transcription control (chromatin remodeling, negative Pol II transcription regulation), protein ubiquitination, and signaling (JNK cascade regulation) with development and immune terms (blood vessel and ventricular septum development, adaptive immune response). This suggests a cohesive group involved in gene expression control and signaling that shapes immune responses and cardiovascular development. ","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0048096","count":3},{"id":"GO:0002250","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0001568","count":2}]},{"hash":"2258197354097672133","title":"Neural and Skeletal Development","description":"This cluster combines GO terms focused on nervous system development (retina development, spinal cord development, response to nerve growth factor) with skeletal/muscular formation processes (bone mineralization, ossification, neuromuscular junction clustering). While some entries touch on general responses (wounding, progesterone), the dominant theme is developmental programs linking neural and skeletal tissues.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030336","count":3},{"id":"GO:0030282","count":3},{"id":"GO:0060041","count":3},{"id":"GO:1990089","count":3},{"id":"GO:1904395","count":3}]},{"hash":"385577388619502663","title":"Neural and sensory organ development","description":"These GO terms cluster around vertebrate neural development (forebrain, midbrain, cerebellum), neural crest\u2013driven craniofacial processes (palate, cartilage), and sensory organ formation (cochlea, inner ear), indicating a developmental program linking neural and sensory tissue morphogenesis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0030901","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0060021","count":3}]},{"hash":"960040463624642679","title":"Embryonic Development and Tissue Morphogenesis","description":"Most terms describe developmental and morphogenetic processes\u2014left-right patterning, placental and trophoblast differentiation, cartilage formation, pancreatic/endocrine system development, and EMT events in heart/valve formation\u2014pointing to a cohesive theme of embryonic tissue differentiation and morphogenesis. A few terms (e.g., wybutosine biosynthesis) appear unrelated, suggesting some annotation noise. The absence of edges suggests the proteins may be involved in diverse contexts but share developmental roles.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":2},{"id":"GO:0090528","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060972","count":2}]},{"hash":"174208170486532293","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0070306","count":2}]},{"hash":"789199943044595836","title":"Neural development and ubiquitin regulation","description":"This cluster shows GO terms tied to neural development (third ventricle development, initiation of neural tube closure, oocyte maturation as a developmental process) and to ubiquitin-mediated proteostasis (ubiquitin-dependent protein catabolic process, positive regulation of protein polyubiquitination), with some cytoskeletal dynamics indicated by microtubule polymerization. The shared theme appears to be developmental processes coupled with regulation of protein turnover, rather than a single narrowly defined function. Confidence: Medium","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046685","count":9},{"id":"GO:1903378","count":9},{"id":"GO:0021678","count":9},{"id":"GO:0021993","count":9},{"id":"GO:0042787","count":9}]},{"hash":"1320769843673576996","title":"Craniofacial and mesodermal development","description":"Based on the prominent GO terms, the proteins appear enriched for embryonic development and morphogenesis, particularly mesoderm derivatives and craniofacial structures. Terms like mesoderm development, cartilage morphogenesis, roof of mouth development, hair follicle morphogenesis, and endocardial cushion EMT point to a developmental program governing craniofacial and cardiac mesoderm derivatives; ribosome export and spliceosome activity are general cellular processes that may support gene expression during these programs.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":9},{"id":"GO:0000398","count":9},{"id":"GO:0010957","count":9},{"id":"GO:1903026","count":9},{"id":"GO:0035270","count":9}]},{"hash":"2102095581448094636","title":"Nuclear import/export and mitotic chromosome dynamics","description":"The top GO terms cluster around nuclear transport (NLS-bearing protein import, nuclear pore assembly, ribosomal protein import/export) and chromosome/kinetochore-related processes (kinetochore localization, mitotic chromosome movement), suggesting a cohesive function in nuclear trafficking and mitosis. The intraciliary transport term is less central but may reflect shared transport machinery; overall the dominant theme is nuclear transport and chromosome segregation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035735","count":3},{"id":"GO:0060188","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0000060","count":3}]},{"hash":"1205916638975538929","title":"Amino acid and porphyrin biosynthesis cluster","description":"The cluster's top terms are dominated by amino acid biosynthesis (tyrosine, histidine, phenylalanine) and porphyrin biosynthesis (protoporphyrinogen IX), with additional links to sphinganine and fatty acid metabolism. Regulatory terms such as Notch signaling and fruit ripening appear but are secondary. Overall, the proteins seem tied to core metabolic biosynthesis, especially amino acid and porphyrin pathways, with some regulatory context.","confidence":"Medium","size":8,"edges":9,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006571","count":4},{"id":"GO:0042853","count":4},{"id":"GO:0007219","count":3},{"id":"GO:0055089","count":3},{"id":"GO:0046511","count":3}]},{"hash":"2203370206007609905","title":"Adhesion-Mediated Immune and Vascular Signaling","description":"The cluster centers on heterophilic cell\u2013cell adhesion and regulation of the actin cytoskeleton by adhesion, suggesting adhesion molecules drive signaling that impacts immune responses (complement activation) and vascular processes (blood coagulation, angiogenesis, cardiac conduction). While most terms point to adhesion-linked signaling in immune/vascular contexts, a few items (fertilization, virus-related complement suppression) are less directly aligned but may reflect broader roles of adhesion and immune signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0086091","count":2},{"id":"GO:0090138","count":2},{"id":"GO:0060244","count":2}]},{"hash":"323704448518903481","title":"Innate Immune Signaling and ERK Activation","description":"The cluster\u2019s top GO terms are dominated by innate immune response and signaling related to bacterial components (LPS, Gram-positive defense), accompanied by positive regulation of the ERK1/ERK2 cascade and T cell proliferation. Although a couple of neuronal development terms appear, the prevalent theme is innate immune signaling with MAPK/ERK pathway involvement, suggesting a coherent immune activation module.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0050830","count":3}]},{"hash":"466841107311812189","title":"Immune signaling and neural development cues","description":"The cluster shows enrichment for immune-related terms (T cell receptor signaling, response to lipopolysaccharide, GM-CSF stimulus) alongside neural development and dopaminergic-related terms (dendrite morphogenesis, regulation of dopamine metabolism). There are also general gene expression processes (DNA replication, DNA-templated transcription), suggesting these proteins participate in signaling and transcriptional regulation across immune and neural contexts rather than a single, cohesive pathway.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0097011","count":4}]},{"hash":"1248170465467805668","title":"Retinoid and Steroid Biosynthesis","description":"The top GO terms cluster around retinoid metabolism (retinal and retinol) and regulation of retinoic acid receptor signaling, together with steroid hormone biosynthesis (testosterone and C21-steroid biosynthetic processes). This suggests a common theme of lipid-derived signaling molecule biosynthesis, despite some additional metabolic terms appearing. Confidence: High.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":5},{"id":"GO:0042572","count":5},{"id":"GO:0048385","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0072001","count":4}]},{"hash":"530422085449447813","title":"Amino acid catabolism and cofactor biosynthesis","description":"This cluster is driven by multiple catabolic and metabolic processes, including leucine and isoleucine catabolism, 2-oxoglutarate metabolism, uracil catabolism, and pathways for lipoate and thiamine biosynthesis, suggesting a metabolic/cofactor-focused group. Some terms like gastrulation or membrane potential regulation appear peripheral or noisy, but the core theme links amino acid degradation and vitamin/cofactor metabolism. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006212","count":4},{"id":"GO:0007369","count":3},{"id":"GO:0006552","count":3},{"id":"GO:0006103","count":3},{"id":"GO:0042208","count":3}]},{"hash":"1326811408142071340","title":"Lipid and Hormone Biosynthesis","description":"GO terms cluster around biosynthesis of steroids and lipids (testosterone, estrogen, androgen; sphingolipid; retinol/retinal) and related metabolism, with transcriptional regulation noted as a co-assigned function. The dominant theme is lipid- and hormone-related biosynthetic pathways, with ancillary metabolic terms and plant secondary metabolism illustrating broader biosynthesis context. Confidence: Medium","confidence":"","size":8,"edges":19,"triangles":17,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":7},{"id":"GO:0071768","count":7},{"id":"GO:0030148","count":7},{"id":"GO:0006703","count":7},{"id":"GO:0006355","count":7}]},{"hash":"892428538574152033","title":"Embryonic morphogenesis and neural development","description":"These proteins show enrichment across multiple developmental and morphogenetic processes, notably neural development (fasciculation of sensory neuron axons, corpus callosum development) and tissue morphogenesis (axial mesoderm formation, skin morphogenesis), with supporting signals in MAPK pathways and general cellular processes. The common theme is involvement in embryonic tissue organization and nervous system development rather than a single, cohesive pathway. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0006397","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0000196","count":2},{"id":"GO:0097155","count":2}]},{"hash":"1781582483255243366","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":16,"triangles":15,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0006189","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0050843","count":1}]},{"hash":"1020491196140994976","title":"Cell cycle and protein regulation","description":"The dominant terms point to core cellular control processes: mitotic cell cycle and DNA replication indicate cell-cycle regulation, while positive regulation of transcription and GTPase activity reflects control of gene expression and signaling. Ubiquitin-dependent endocytosis and MVB sorting suggest protein turnover and trafficking, tying together regulation of protein levels with cellular signaling. Some peripheral terms about visual perception and cardiac muscle contraction hint broader signaling contexts, but the core theme centers on regulation of fundamental cellular processes and maintenance.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043388","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0007601","count":2}]},{"hash":"1018287887256529834","title":"Cell Cycle and DNA Replication Cluster","description":"The top GO terms are dominated by cell division and DNA replication, pointing to a core cell-cycle/replication function. Other terms (SNARE complex disassembly, GPCR signaling, neuron maturation, immune response) appear alongside several obsolete annotations, suggesting some annotation noise and less cohesion. Overall, the strongest signal is involvement in cellular replication and division, justifying this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0035494","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006471","count":2}]},{"hash":"1936519972003644797","title":"Cartilage proteoglycan biosynthesis and bone formation","description":"This cluster is dominated by terms tied to skeletal development and extracellular matrix, including cartilage/bone morphogenesis, endochondral ossification, and negative regulation of ossification. Recurrent mentions of dermatan sulfate and chondroitin sulfate proteoglycan biosynthesis, sulfation, and UDP-sugar metabolism indicate a shared function in proteoglycan assembly and ECM modification essential for skeletal tissues. The presence of hedgehog signaling modulation (Smoothened pathway) further aligns with bone/cartilage patterning.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060876","count":3},{"id":"GO:0046398","count":3},{"id":"GO:0060349","count":3},{"id":"GO:0045880","count":3},{"id":"GO:0050653","count":3}]},{"hash":"157851606441339491","title":"Telomere maintenance and DNA replication","description":"These proteins cluster around genome stability involving telomere biology and replication/repair machinery, with GO terms spanning telomere maintenance, replication fork progression, DNA repair, and regulation of telomerase. This coherent theme supports labeling the group as telomere maintenance and DNA replication-related proteins.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1903469","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0044806","count":3},{"id":"GO:0006281","count":3}]},{"hash":"239581363606907110","title":"Unknown","description":"The top GO terms are highly disparate (angiogenesis regulation, ion transport, DNA replication initiation, intracellular transport, cholesterol response, toxin response, etc.) and there is no clear, shared biological theme tying the proteins together. With edges and connectivity also absent, it's not possible to assign a coherent, representative function for this cluster.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006813","count":2},{"id":"GO:0032298","count":2},{"id":"GO:0006349","count":2}]},{"hash":"1146656547864615424","title":"Epithelial differentiation via Wnt and Hippo signaling","description":"The GO terms point to epithelial lineage differentiation (keratinocytes and intestinal epithelium) and key signaling pathways (Wnt, Hippo) that govern proliferation and fate decisions. Additional terms on GTPase regulation, apoptosis, and ubiquitination suggest a coordinated module controlling epithelial growth, differentiation, and protein regulation, rather than a single isolated function. This combination best fits a cluster centered on epithelial differentiation regulated by Wnt/Hippo signaling and associated processes.","confidence":"Medium","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0030216","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0035329","count":4}]},{"hash":"832506103424330960","title":"Dopamine-Related Neuronal Development","description":"The GO terms cluster around neuronal development and dopaminergic signaling, including tangential migration of interneurons to the olfactory bulb, regulation of neuron maturation, cellular response to dopamine, and dopamine receptor signaling, with supporting hints from polarity and energy-sensing pathways. This pattern suggests proteins involved in the development and signaling of dopaminergic neurons, with some auxiliary cell-cycle/polarity associations.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022028","count":2},{"id":"GO:0035751","count":2},{"id":"GO:0014041","count":2},{"id":"GO:1903351","count":2},{"id":"GO:0031578","count":2}]},{"hash":"857279440956001780","title":"Unknown","description":"The terms span spermatogenesis and male gonad development, extracellular matrix organization, lipoprotein biosynthesis, NK cell\u2013mediated cytotoxicity, erythrocyte homeostasis, protein maturation, and signaling, with some obsolete annotations. This broad mix lacks a single, cohesive functional theme for the cluster, so a precise label cannot be confidently assigned.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0022417","count":1},{"id":"GO:0019471","count":1},{"id":"GO:0030416","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0034101","count":1}]},{"hash":"1760245756278511560","title":"Embryonic organ and tissue morphogenesis","description":"This cluster shows a pattern of developmental processes across multiple organs and tissues, including otic placode formation, limb bud formation, lacrimal and Harderian gland development, chondrocyte and oligodendrocyte differentiation, and embryonic digestive tract morphogenesis, suggesting a shared theme of embryonic morphogenesis. A few terms relate to basic cellular processes such as ribosomal biogenesis and transcription regulation, but the prominent developmental terms support the chosen label.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0032332","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0032808","count":2},{"id":"GO:0048557","count":2}]},{"hash":"247922565551042131","title":"Vertebrate Development and Morphogenesis","description":"This cluster\u2019s top GO terms cluster around developmental processes and tissue formation\u2014left/right patterning, endocardial cushion EMT, palate development, trophoblast differentiation, and endocrine system development\u2014suggesting a developmental/morphogenetic theme. Included terms on RNA processing and DNA replication initiation hint at broader gene-expression regulation that supports development rather than a single pathway.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0010957","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003198","count":5}]},{"hash":"179034799347718014","title":"Unknown","description":"The top GO terms span multiple, non-overlapping developmental processes (placenta, pancreas, cartilage, left-right patterning, EMT in heart development) plus immune and neural terms, giving no single unifying function for the cluster. Therefore the cluster has no coherent theme. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060972","count":2}]},{"hash":"1372380022037571370","title":"RNA Processing and Translational Regulation","description":"Most terms point to RNA metabolism and post-transcriptional control: alternative splicing via the spliceosome, mRNA stabilization, regulatory ncRNA-mediated gene silencing, and regulation of polyadenylation; plus translation-related terms (translation reinitiation, IRES-dependent viral initiation/termination-reinitiation) and small-subunit processome assembly, indicating involvement in ribosome biogenesis. Taken together, these proteins likely participate in RNA processing and translational control.","confidence":"Medium","size":8,"edges":15,"triangles":13,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":6},{"id":"GO:0000380","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0001825","count":6},{"id":"GO:0048255","count":6}]},{"hash":"1567286196883574169","title":"Organogenesis and morphogenesis across species","description":"The cluster is enriched for multiple morphogenesis and organ development terms (eye, midbrain, antennal segment identity, viscerocranium, haltere, floral whorl) across diverse taxa, suggesting a shared role in developmental patterning and tissue formation. Some terms about hormone/light signaling appear, but the dominant theme centers on morphogenesis rather than a single pathway. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043010","count":6},{"id":"GO:0048703","count":6},{"id":"GO:0048457","count":5},{"id":"GO:0048735","count":5},{"id":"GO:0009722","count":5}]},{"hash":"474916996549571476","title":"Mitochondrial Apoptosis Signaling","description":"This cluster\u2019s top GO terms strongly point to mitochondrial pathways of programmed cell death, including hydrogen peroxide-mediated apoptosis and the positive regulation of cytochrome c release from mitochondria, with supporting terms about mitochondrial outer membrane protein insertion. While a few terms refer to development, the central theme appears to be mitochondrial-mediated apoptotic signaling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010421","count":1},{"id":"GO:1903645","count":1},{"id":"GO:1903638","count":1},{"id":"GO:0071560","count":1},{"id":"GO:0090200","count":1}]},{"hash":"2247545352842302836","title":"Organellar gene expression","description":"The most represented GO terms point to transcription and ribosome-related processes occurring in organelles (mitochondria and chloroplasts/plastids), including mitochondrial transcription, plastid rRNA transcription, mitochondrial ribosome assembly, and chloroplast organization. These together suggest a coherent theme of organelle-specific gene expression and ribosome biogenesis, with a few ancillary nuclear-related terms that are less central to the main signal.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":2},{"id":"GO:0042794","count":1},{"id":"GO:0061668","count":1},{"id":"GO:0006390","count":1},{"id":"GO:0008380","count":1}]},{"hash":"717994821054322296","title":"Inflammation and cytokine signaling","description":"The set centers on immune signaling terms: inflammatory response, interleukin-4 production, and non-canonical NF-kappaB signaling, with positive regulation of nitric oxide biosynthesis and regulation of interferon production, suggesting a core role in cytokine-driven inflammation. Some entries (mechanical stimulus response, receptor clustering, social behavior, ion transport) are broader or context-dependent, but the dominant theme is inflammatory and cytokine signaling. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0072602","count":2},{"id":"GO:0042346","count":2},{"id":"GO:0032689","count":2}]},{"hash":"1340431005902013978","title":"Calcium-Driven Transcription and Signaling in Muscle and Brain","description":"The cluster shows enrichment for transcription regulation terms (positive regulation of DNA binding, transcription by RNA polymerase II) together with calcium signaling and neural/muscle-related processes (calcium detection, regulation of synaptic vesicle exocytosis, long-term memory), suggesting a theme of activity-dependent transcription linked to calcium signaling across muscle and brain contexts, with some ancillary muscle regeneration signals.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0014718","count":3},{"id":"GO:0033234","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2}]},{"hash":"736152924223740776","title":"Neuronal Synaptic Vesicle Cycling and Signaling","description":"Top GO terms indicate synaptic activity and neuronal signaling: regulation of synaptic vesicle endocytosis and exocytosis, excitatory postsynaptic potential, and substantia nigra development point to synaptic vesicle cycling and dopaminergic neuronal communication. Other terms (mitotic cell cycle, ribosomal large subunit export, cellular response to xenobiotic stimulus, parathyroid hormone response) are less specific to synaptic function and may reflect broader cellular processes. Overall, the cluster is best described by neuronal synaptic vesicle cycling and signaling.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0000278","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0000055","count":2}]},{"hash":"850159507849043547","title":"Protein Quality Control and Degradation Pathways","description":"This cluster centers on ubiquitin-related processes (deubiquitination and sumoylation) and protein turnover via ERAD and autophagy/mitophagy, with associated stress signaling terms, indicating a cohesive role in maintaining proteostasis.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:0016925","count":3},{"id":"GO:1904378","count":3},{"id":"GO:0038061","count":3},{"id":"GO:1903071","count":2}]},{"hash":"984231763383626374","title":"Intracellular protein trafficking and Golgi organization","description":"This cluster centers on intracellular transport and organelle targeting, notably Golgi ribbon formation and regulation of Golgi organization, along with protein localization to the plasma membrane and mitochondrial inner-membrane processes. The common theme across the GO terms is a coordinated trafficking/secretion/targeting program.","confidence":"High","size":8,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0072321","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0032258","count":2}]},{"hash":"1776011868777548671","title":"Neural signaling and drug response","description":"The top terms center on neural development and synaptic activity (optic nerve morphogenesis, excitatory postsynaptic potential) and responses to ethanol and cocaine, suggesting a cluster tied to neuronal signaling and drug responsiveness. Occasional terms like mRNA processing and chromosome separation appear more general, but do not override the neural-dominant theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":3},{"id":"GO:0021631","count":3},{"id":"GO:1901214","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0042220","count":3}]},{"hash":"339071652076005688","title":"Retina phototransduction and GPCR signaling","description":"This cluster is dominated by GO terms tied to opsin/visual signaling, visual perception, and GPCR pathways that activate adenylyl cyclase, along with calcium release and protein phosphorylation. While notes of cardiac regulation and electron transport appear, the strongest and most coherent theme is retinal phototransduction and associated GPCR signaling, including cAMP and Ca2+ dynamics. ","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":7},{"id":"GO:0045777","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0055117","count":4}]},{"hash":"1422868220429126096","title":"Cell Cycle and ER-Golgi Transport","description":"The strongest signals are cell cycle/division terms (GO:0051301, GO:0007049) and several vesicle-transport processes connecting ER, Golgi, and plasma membrane (GO:0043001, GO:0090316, GO:0006888). A related term about ribosomal subunit export (GO:0000055) supports a theme of coordinated cellular growth and trafficking. While a few terms like insulin response or cardiac conduction are present, they appear less central to the cluster\u2019s core function. Overall, this cluster seems to group proteins involved in cell-cycle progression alongside intracellular transport machinery.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0043001","count":3},{"id":"GO:0090316","count":3}]},{"hash":"1708262903610204146","title":"Intracellular trafficking and secretory pathway","description":"This cluster shows enrichment for GO terms tied to intracellular transport and processing, including nuclear export of ribosomal subunits, Golgi localization, lysosomal membrane organization, and regulation of the secretory pathway, with additional signals from synaptic vesicle budding. While some terms touch on development and differentiation, the strongest recurring theme is protein trafficking and secretion within cells.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0070142","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0097212","count":2},{"id":"GO:0000042","count":2}]},{"hash":"707464564086933777","title":"Thermogenic GPCR-cAMP signaling","description":"The top GO terms cluster around temperature response and diet-induced thermogenesis, with strong representation of GPCR signaling that activates adenylate cyclase and elevates cAMP, plus related energy metabolism processes (regulation of membrane potential and electron transport). This points to a cohesive theme of thermogenesis and energy regulation driven by GPCR-cAMP pathways, potentially in adipose or neural tissues affecting vascular/homeostatic functions.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0042391","count":5},{"id":"GO:0071320","count":4}]},{"hash":"1030793033077405506","title":"Spermatogenesis and meiotic cytokinesis","description":"The top GO terms are dominated by spermatogenesis-related processes, including spermatid nucleus elongation, acrosome assembly, and meiosis I/II cytokinesis, which together point to a cluster of proteins involved in male gamete development and meiotic division. Some related terms (e.g., vesicle transport and neuron differentiation) appear as general or background annotations, but the strongest signal centers on spermatogenesis and meiotic cytokinesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":1},{"id":"GO:0007290","count":1},{"id":"GO:0000916","count":1},{"id":"GO:0001675","count":1},{"id":"GO:0007111","count":1}]},{"hash":"2069539631374206405","title":"Developmental regulation and tissue differentiation","description":"In this cluster, the terms cluster around developmental processes across multiple tissues (heart, adipose, placenta, spermathecum, trachea cartilage) and transcriptional control (DNA-templated transcription, retinoic acid response), suggesting a cohesive theme of developmental regulation and differentiation. A few terms (nitrite transport, immune cytokine regulation) appear peripheral but may reflect broader regulatory networks.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904179","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0015707","count":2}]},{"hash":"681187485831147742","title":"Proteoglycan biosynthesis and glycosaminoglycan metabolism","description":"This cluster is enriched for proteoglycan/glycosaminoglycan related processes: keratan sulfate proteoglycan biosynthetic process, N-acetylglucosamine metabolic process, and even the (obsolete) heparan sulfate proteoglycan biosynthetic process, all pointing to synthesis and modification of sulfated carbohydrates that form extracellular matrix proteoglycans. The inclusion of embryonic neurocranium morphogenesis and regulation of angiotensin levels hints at development and vascular contexts where proteoglycans and their metabolites are key, supporting a cohesive theme around proteoglycan production and glycosaminoglycan metabolism.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009812","count":5},{"id":"GO:0000103","count":5},{"id":"GO:0018146","count":4},{"id":"GO:0002002","count":4},{"id":"GO:0006044","count":4}]},{"hash":"789866736198058397","title":"Innate Immune Signaling and Antiviral Defense","description":"This cluster is driven by GO terms tied to innate immune responses and antiviral defense (innate immune response, defense response to virus) and is complemented by terms related to immune signaling regulation (K63-linked ubiquitination) and cell death control (negative regulation of necroptosis). Additional terms touch on related stress and regulatory processes (NOS activity, GTPase regulation, peroxisome import), but the core theme centers on innate immunity and antiviral defense signaling. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0034260","count":3},{"id":"GO:0000715","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0050999","count":3}]},{"hash":"2207685101050241060","title":"Cardiovascular Regulation and Thermogenesis","description":"Based on the GO terms, the cluster centers on cardiovascular control and energy expenditure: positive regulation of blood pressure, regulation of vasoconstriction, and GPCR signaling that activates adenylate cyclase all point to vascular tone and blood pressure regulation. Several terms relate to thermogenesis and heat generation (diet-induced thermogenesis, heat generation), indicating energy metabolism and temperature homeostasis. The electron transport chain term suggests mitochondrial energy production supporting these processes. Some terms like absorption of visible light are less clearly connected, but the dominant theme is cardiovascular regulation with metabolic/thermogenic support.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0022900","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4}]},{"hash":"2065260328118847823","title":"Planar polarity signaling in morphogenesis and axon guidance","description":"This cluster centers on planar cell polarity (PCP) processes: establishment of planar polarity, PCP-related axon guidance, and morphogenesis such as lung branching. The presence of terms about hair orientation, planar polarity in nerve guidance, and lung morphogenesis all point to PCP coordinating tissue patterning and guided neurite outgrowth, making PCP-driven morphogenesis and axon guidance the best unifying theme.","confidence":"High","size":8,"edges":17,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048105","count":3},{"id":"GO:0060488","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0090251","count":3},{"id":"GO:0036515","count":3}]},{"hash":"286741626341247178","title":"Antiviral Innate Immune Signaling","description":"The top GO terms point strongly to antiviral defense and innate immune sensing, including defense response to virus, innate immune response, dsRNA sensing, and TLR2 signaling, with ubiquitination-related processes suggesting regulation of immune signaling. Translation and cell division terms appear as auxiliary cellular processes but do not define the core antiviral-innate theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0071360","count":2},{"id":"GO:0006412","count":2}]},{"hash":"881492410099434710","title":"Neuronal axon development and adhesion","description":"This cluster is characterized by strong enrichment for neuron projection development and axon-related localization to paranodes, coupled with cell adhesion and cytoskeletal regulation signals (actin filament capping, GTPase activity regulation, and phosphotyrosine signaling), suggesting a cohesive role in neuronal axon formation and remodeling through cytoskeletal dynamics and cell\u2013cell interactions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071560","count":3}]},{"hash":"1248530771498194873","title":"Vascular development and endothelial adhesion","description":"The top GO terms cluster around cardiovascular and vascular biology: ventricular septum development, endothelial cell-cell adhesion, integrin-mediated adhesion, regulation of angiogenesis, smooth muscle proliferation in vessels, and blood coagulation. This indicates a cohesive function in vascular development and endothelial interactions with the extracellular matrix, as well as vessel remodeling processes. The presence of skeletal system development terms may reflect shared developmental signaling but does not overwhelm the vascular theme.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003281","count":3},{"id":"GO:0071603","count":3},{"id":"GO:2001027","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0045669","count":3}]},{"hash":"2076087913920559577","title":"Chromatin organization and epigenetic regulation","description":"The cluster is dominated by terms tied to chromatin and epigenetic control (subtelomeric heterochromatin formation; establishment of protein localization to chromatin; regulation of histone methylation; transcriptional control of rRNA by RNA Pol I), with additional links to genome stability and cell-cycle\u2013related processes (mitotic cohesion) and apoptosis. While some terms touch signaling or autophagy, the core theme centers on chromatin state and transcriptional regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0051725","count":1},{"id":"GO:0071169","count":1}]},{"hash":"361557813737158733","title":"Auditory processing and neural excitability","description":"This cluster centers on neural signaling related to hearing and rapid behavioral responses. Across GO terms, we see sensory perception of sound and startle response, EPSP, membrane depolarization, and ion transport, with both excitatory (sodium, EPSP) and inhibitory (GABA signaling) components. The inclusion of locomotory behavior and conditioned taste aversion suggests involvement in a neural circuit that translates auditory cues into motor actions.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0007626","count":6},{"id":"GO:0001661","count":6}]},{"hash":"679368959246170328","title":"Apoptosis and Signaling Pathway Regulators","description":"The GO terms point to regulation of apoptosis (positive regulation of apoptotic process, extrinsic apoptotic signaling, TNF signaling) and growth control (negative regulation of cell proliferation) along with negative regulation of Wnt signaling, suggesting these proteins modulate signaling cascades that determine cell fate. Additional terms for transcription and mRNA processing, plus autoubiquitination, imply nuclear regulation and protein turnover that support signaling control. Overall, the cluster appears to group regulators of apoptosis and signaling pathways, with some transcription-related roles.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0090090","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0008285","count":2},{"id":"GO:2001241","count":2}]},{"hash":"503801040505320241","title":"Nucleocytoplasmic Transport and Nuclear Pore Assembly","description":"This cluster is dominated by terms for importing proteins into the nucleus, ribosomal protein import, and nuclear pore complex assembly, with additional signals of nuclear export and transport regulation, all pointing to nucleocytoplasmic trafficking and ribosome biogenesis in the nucleus.","confidence":"High","size":7,"edges":15,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060188","count":5},{"id":"GO:0006607","count":5},{"id":"GO:0051292","count":5},{"id":"GO:0000060","count":5},{"id":"GO:0006610","count":5}]},{"hash":"39892015138359473","title":"Nuclear gene expression in development","description":"The cluster is dominated by nuclear processes: DNA-templated transcription, mRNA processing, and chromosome separation, along with DNA replication, all pointing to regulation of gene expression and genome handling. Developmental terms such as multicellular organism development and lung morphogenesis suggest a role in developmental gene regulation, while apoptosis hints at cell-fate decisions during development. Some terms (e.g., sensory perception of pain) may be less representative or incidental, but the core signal links gene expression regulation with development.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0046827","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0051973","count":5}]},{"hash":"928334294380427618","title":"Carbohydrate metabolism and nucleotide salvage","description":"The proteins show enrichment for carbohydrate-related processes (glycolytic steps, fructose/sucrose responses, lactose catabolic pathway, and carbohydrate phosphorylation) along with nucleotide salvage/biosynthesis (AMP/adenosine salvage and dATP biosynthesis) and a related ADP-heptose biosynthetic step, indicating a cohesive theme around sugar metabolism and nucleotide turnover rather than a single specific pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0097171","count":3},{"id":"GO:0009750","count":2},{"id":"GO:0006169","count":2},{"id":"GO:0006175","count":2}]},{"hash":"19629189918265874","title":"RNA processing and translation machinery","description":"The cluster centers on RNA metabolism and handling, including alternative mRNA splicing via spliceosome, mRNA stabilization, and small-subunit processome assembly (ribosome biogenesis), plus regulatory ncRNA-mediated gene silencing. It also tightly groups translation-related terms such as IRES-dependent viral translational initiation, translation reinitiation, and viral termination-reinitiation, pointing to a cohesive theme of RNA processing combined with translational control, including viral contexts.","confidence":"High","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075522","count":4},{"id":"GO:1901407","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001825","count":3}]},{"hash":"844668651044474941","title":"Bacterial Translation and Cell Cycle","description":"The cluster is dominated by translation-related terms (cytoplasmic translation, translation, tRNA modification) and cell cycle/division terms, indicating proteins tied to protein synthesis and bacterial proliferation. While a few terms point to antibiotic response and biosynthesis, the strongest signal centers on translation machinery and cell cycle processes, justifying the label as a cohesive \"Bacterial Translation and Cell Cycle\" group.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1523304420392261106","title":"Pentose phosphate and nucleotide sugar catabolism","description":"The top GO terms cluster around the pentose phosphate pathway (pentose-phosphate shunt, non-oxidative branch) and catabolic processes for nucleotide sugars (UDP, GDP, CDP), indicating a common theme of pentose metabolism and sugar nucleotide turnover. A few terms related to plant reproductive processes (pollen exine formation, anther dehiscence) appear, but the dominant functional signal is carbohydrate and nucleotide-sugar catabolism, supporting a specific label focused on pentose metabolism and nucleotide-sugar turnover. ","confidence":"High","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000743","count":2},{"id":"GO:0006098","count":1},{"id":"GO:0009052","count":1},{"id":"GO:0019323","count":1},{"id":"GO:0044262","count":1}]},{"hash":"1010427512961733124","title":"Neural Development and Signaling","description":"This cluster is driven by terms related to nervous system development, notably cerebral cortex neuron differentiation, striatum development, and locomotory behavior, with supportive signals from transcriptional regulation and phosphorylation. Some terms (cytolysis, bone development, nucleotide salvage) appear peripheral or incidental, but the dominant theme centers on neural development and associated signaling processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":1},{"id":"GO:0021895","count":1},{"id":"GO:0060348","count":1},{"id":"GO:0007626","count":1},{"id":"GO:0045982","count":1}]},{"hash":"738191623595907095","title":"Diverse metabolite biosynthesis","description":"The top GO terms cluster around biosynthetic processes for a range of small molecules (antibiotics, chlorophyll, biotin, protoporphyrinogen IX) and related catabolic processes (GABA, putrescine), suggesting a set of proteins broadly involved in metabolite production and turnover rather than a single pathway. The presence of obsolete annotations indicates historical associations, but the common thread is biosynthetic capacity across multiple metabolite classes.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0015995","count":2},{"id":"GO:0042450","count":2},{"id":"GO:0010121","count":2},{"id":"GO:0009450","count":2}]},{"hash":"2019072616591308992","title":"Neural signaling and sensory perception","description":"Top terms cluster around neural signaling and sensory processing, including visual perception, pain perception, and behavioral responses to morphine and cocaine. They also highlight signaling pathways (positive regulation of ERK1/ERK2 cascade and GTPase activity) and modulators like prostaglandin stimuli, which are linked to neural function. Some terms point to brain-vascular interactions (brain renin-angiotensin system) and heart development, suggesting broader brain signaling contexts, but the core theme remains neuronal signaling and sensory perception.","confidence":"Medium","size":7,"edges":10,"triangles":3,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0019233","count":5}]},{"hash":"1580239445066034042","title":"Mitotic Cell Cycle Machinery","description":"This cluster is dominated by core cell-cycle terms: DNA replication, G2/M transition, cell cycle, and centrosome cycle, plus mitotic spindle pole body duplication, pointing to mitosis and DNA replication processes. Some outliers (Schwann cell development, heart development, visual perception, abscisic acid signaling) appear but do not override the central theme of cell division machinery.","confidence":"High","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0014044","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0007601","count":2}]},{"hash":"2194714713474920677","title":"Unknown","description":"The top GO terms span a broad mix of developmental, immune/injury response, circadian, and cell regulation processes (e.g., ECM disassembly regulation, apoptotic process, salivary gland and Sertoli cell development, axon injury response, acute-phase response, circadian rhythm, coagulation and vascular remodeling). This lack of a cohesive single theme, plus only a couple of edges and no clear cohesive functional cluster, suggests no common function unites these proteins. ","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010716","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0007431","count":1},{"id":"GO:0048678","count":1},{"id":"GO:0006953","count":1}]},{"hash":"2113292330873944155","title":"Mesodermal development and tissue differentiation","description":"Dominant GO terms point to development and differentiation of mesoderm-derived tissues (mesoderm formation, chondrocyte differentiation, cardiac muscle proliferation, fat cell differentiation, inner ear development). While a few terms touch on signaling and stress responses, the core theme is embryonic tissue specification and differentiation, supporting a label focused on mesoderm-associated development. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":3},{"id":"GO:0071374","count":2},{"id":"GO:1901621","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071479","count":2}]},{"hash":"1365797677455131255","title":"Anti-inflammatory signaling and immune regulation","description":"The top GO terms predominantly describe negative regulation of inflammatory signaling (NF-\u03baB, IL-1\u03b2, TNF) and related proliferation in vascular and fibroblast contexts, along with prostaglandin biosynthesis and cell-matrix adhesion. This points to a coherent theme of dampening inflammatory/immune signals and associated cellular interactions, even though a couple terms (like oligodendrocyte development) are less tightly connected. Overall, the cluster appears to represent anti-inflammatory and immune-regulatory functions with ECM-related signaling.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904706","count":7},{"id":"GO:0043124","count":7},{"id":"GO:0071460","count":7},{"id":"GO:0014003","count":7},{"id":"GO:0048147","count":7}]},{"hash":"616440236600101243","title":"Ribosome Biogenesis and Translation Fidelity","description":"This cluster centers on ribosome biology and translation. Terms include translation, ribosome biogenesis (including small subunit biogenesis), translational termination, SSU-rRNA maturation, and regulation of translational fidelity\u2014pointing to ribosome assembly and accurate protein synthesis. RNA folding and intron splicing reflect RNA processing needed for ribosome maturation; the antibiotic response term aligns with ribosome-targeting stress. Overall, the theme is ribosome biogenesis plus translation fidelity.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0046677","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0006415","count":2}]},{"hash":"2204353868920957150","title":"Developmental Signaling and Organogenesis","description":"The cluster\u2019s GO terms coalesce around developmental processes and organ formation, including BMP-triggered signaling, cardiac morphogenesis and regeneration, ear and ureter development, and epigenetic regulation of gene expression during development. While some terms touch on immune differentiation (pro-T cell differentiation and interferon response) or bone biology, the dominant theme points to signaling pathways guiding tissue and organ development. Confidence: Medium","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071773","count":4},{"id":"GO:0003215","count":4},{"id":"GO:0060766","count":4},{"id":"GO:0045668","count":4},{"id":"GO:0061026","count":3}]},{"hash":"2047625132449591690","title":"Proteostasis: Ubiquitin\u2013Proteasome and Autophagy Regulation","description":"The terms point to coordinated protein quality control via the ubiquitin\u2013proteasome system (K48-linked deubiquitination, ERAD, proteasome-dependent degradation, sumoylation) and autophagy pathways (autophagosome assembly, piecemeal microautophagy of the nucleus). The inclusion of microtubule cytoskeleton and Golgi organization suggests roles in intracellular trafficking and organelle quality control, linking degradation pathways with cellular logistics. This supports a coherent theme of proteostasis and crosstalk between ubiquitin-proteasome and autophagy systems.","confidence":"Medium","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903094","count":3},{"id":"GO:0030433","count":3},{"id":"GO:2000157","count":3},{"id":"GO:0043161","count":3},{"id":"GO:0034727","count":3}]},{"hash":"850823677179502594","title":"Cytoplasmic Translation and Fidelity Regulation","description":"Dominant GO terms cluster around cytoplasmic translation and its regulation: translation, termination, elongation, and selenocysteine incorporation, with several entries indicating positive regulation of translational fidelity and cytoplasmic translation. Additional terms touch on RNA processing and decay, suggesting coupling of translation with mRNA turnover and RNA silencing pathways, but the central theme remains the translation machinery and its control.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006415","count":3},{"id":"GO:0045903","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0001514","count":2}]},{"hash":"2030037661681876640","title":"Ion and sugar membrane transporters","description":"These proteins show strong enrichment for ion transmembrane transport (potassium and sodium) and multiple sugar-related transport terms (xylose, galactose, lactose), along with related metabolic and vesicular transport terms (neurotransmitter loading into synaptic vesicle, glucose starvation response, ascorbic acid metabolism). The common theme is membrane transporter activity focused on ions and carbohydrates, with a hint of vesicular transport involvement. ","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0042149","count":4},{"id":"GO:0098700","count":4},{"id":"GO:0071332","count":4}]},{"hash":"1024977543698310480","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes and polyubiquitination, especially SCF-dependent proteasomal degradation, pointing to a core role in proteostasis and cell-cycle\u2013related protein turnover; a few other terms (circadian regulation, oligomerization) may reflect broader regulatory roles or annotation noise.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0051260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0030433","count":4}]},{"hash":"1319421240019641593","title":"Neurodevelopment and embryonic morphogenesis","description":"Interpreting the cluster, the proteins seem linked to transcriptional control during early development, with a pronounced emphasis on neural differentiation and organ morphogenesis. The GO terms include transcription regulation, neural development (peripheral nervous system neurons, ventral spinal cord interneurons, inner ear), and various morphogenesis processes (primitive streak formation, digestive tract, ureteric bud branching, blood vessel morphogenesis), suggesting a cohesive theme of neurodevelopmental and embryonic morphogenesis programs.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0048935","count":2},{"id":"GO:0090009","count":2},{"id":"GO:0035019","count":2}]},{"hash":"1592128766111538232","title":"Neuronal Migration and Presynaptic Organization","description":"The top terms cluster around neuronal development, especially neuronal migration (tangential migration to the olfactory bulb, cortical radially oriented migration, interneuron precursor migration) and maintenance of presynaptic active zone structure, suggesting involvement in brain wiring and synapse formation. Some outliers related to keratinization, immune response, and lysosomal pH appear, but the dominant signal points to neural development and synaptic organization.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022028","count":6},{"id":"GO:0021799","count":6},{"id":"GO:0021831","count":6},{"id":"GO:1903307","count":6},{"id":"GO:0035751","count":6}]},{"hash":"256663945645840472","title":"Embryonic Development and Tissue Differentiation","description":"These GO terms span neuronal, cardiac, pancreatic, skin/hair, and epithelial differentiation, plus axon guidance and planar polarity pathways. Although the proteins cover diverse tissues, the common theme is developmental differentiation programs rather than a single module, suggesting a multi-tissue developmental trajectory represented by this cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":3},{"id":"GO:0002315","count":2},{"id":"GO:0003273","count":2},{"id":"GO:0003208","count":2},{"id":"GO:0003323","count":2}]},{"hash":"1132012357726596510","title":"Embryonic morphogenesis and tissue remodeling","description":"The top GO terms cluster around developmental processes that shape tissues and organs (face morphogenesis, cartilage condensation, genitalia development) and involve extracellular matrix remodeling (positive regulation of metalloendopeptidase activity) and signaling (protein dephosphorylation, growth hormone regulation). Immune-related terms are present but less central, suggesting the core function is development and tissue remodeling rather than an immune-specific pathway.","confidence":"Medium","size":7,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":5},{"id":"GO:0001502","count":4},{"id":"GO:0060325","count":4},{"id":"GO:1904685","count":3},{"id":"GO:0048806","count":3}]},{"hash":"1967856124844012236","title":"Cytoskeletal remodeling and mitosis","description":"The GO terms cluster around actin dynamics (Arp2/3 nucleation, actin filament depolymerization) and regulation of GTPase activity, plus mitotic processes (spindle assembly and sister chromatid cohesion). While some terms touch on growth factor signaling, nutrient response, and neuron projection development, the dominant signals point to cytoskeletal remodeling linked to cell division, suggesting a coherent theme of actin dynamics coordinating mitosis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007584","count":1},{"id":"GO:0034314","count":1}]},{"hash":"1811630712114521624","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"The top terms cluster around ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis, various forms of ubiquitination, autoubiquitination) and innate immune signaling (innate immune response, TNF signaling, NF-kappaB-related activity). This suggests a cohesive function in regulating immune responses through ubiquitin tagging and proteasomal degradation, with some ancillary terms that may be noise. Confidence in this thematic label is High.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0051092","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1903762","count":3}]},{"hash":"1451810537782007781","title":"Neuronal signaling and RNA processing regulators","description":"This cluster centers on terms tied to neuronal communication and gene expression control, notably intracellular signal transduction, regulation of synaptic plasticity via receptor localization to the synapse, SNARE complex regulation, and mRNA processing/stability. While a few terms are non-neuronal, the dominant themes point to proteins involved in synaptic signaling and post-transcriptional regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":7},{"id":"GO:1900383","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0010845","count":6},{"id":"GO:1904743","count":6}]},{"hash":"206177267359762141","title":"Embryonic organogenesis and tissue morphogenesis","description":"The cluster is enriched for terms related to organ development and morphogenesis: heart valve formation, endocardial cushion migration, nephron tubule differentiation, and bone ossification, with supporting roles in cell adhesion and migration. While a few terms touch on neural or sensory processes, the strongest signal centers on embryonic tissue formation across multiple organs, indicating a general morphogenesis theme rather than a single pathway.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0072218","count":2},{"id":"GO:0072137","count":2},{"id":"GO:0097150","count":2}]},{"hash":"126756262153912175","title":"Neurite outgrowth and Arp2/3 actin nucleation","description":"The cluster is enriched for GO terms related to neuron projection development and regulation of Arp2/3 complex\u2013mediated actin nucleation, which together point to neuronal morphology and cytoskeletal remodeling during neurite extension. While there are also general terms for translation initiation and RNA splicing, the strongest signals emphasize neuronal growth and actin dynamics, supporting a cohesive theme around neurite outgrowth.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006388","count":1}]},{"hash":"1317807612188832103","title":"Phospholipid remodeling and lipid biosynthesis","description":"This cluster centers on enzymes and processes for lipid remodeling and biosynthesis, including cardiolipin remodeling, phosphatidylcholine remodeling, triglyceride and ether lipid biosynthesis, and CDP-diacylglycerol biosynthesis, pointing to membrane lipid metabolism as the core function. Some developmental or immune-related terms appear but are likely secondary or context-dependent. ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035965","count":2},{"id":"GO:0016024","count":2},{"id":"GO:0002071","count":2},{"id":"GO:0006663","count":2},{"id":"GO:0019432","count":2}]},{"hash":"1985008696488232033","title":"Unknown","description":"The top GO terms are highly diverse, covering immune/inflammatory mediation, metabolism, memory, insulin secretion, cardiac conduction, transcription regulation, and development, with no clear shared function tying the proteins together. This lack of a coherent theme warrants an Unknown label.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0002532","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0007616","count":1}]},{"hash":"179487367243178471","title":"Cardiac GPCR-cAMP signaling and heart development","description":"This cluster is dominated by GO terms related to GPCR signaling that activates adenylate cyclase and raises cAMP (GO:0010579, GO:0007190), coupled with heart development and blood pressure regulation (GO:0007507, GO:0045777). These terms together point to a cardiovascular signaling module, especially through GPCR-cAMP pathways. A couple of outliers (electron transport chain, visual perception) may reflect broader cellular roles or annotation noise, but the core theme supports cardiac signaling. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":4},{"id":"GO:0051281","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0043950","count":4},{"id":"GO:0045777","count":4}]},{"hash":"1381733066059767445","title":"Innate antibacterial defense and LPS signaling","description":"The cluster is enriched for innate immune terms: defense response to Gram-positive bacteria, innate immune response, lipopolysaccharide-mediated signaling pathway, cellular response to lipopolysaccharide, and interferon-beta production, which together point to bacterial defense and LPS-related signaling. A few terms on neural development and dopamine response appear, likely as annotation noise or multifunctional proteins, but the strongest signal centers on innate antibacterial immunity.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0045359","count":2}]},{"hash":"2011124656124881577","title":"Quinone Biosynthesis and Fatty Acid Metabolism","description":"The top GO terms are dominated by quinone biosynthesis (menaquinone and phylloquinone) and fatty acid metabolism (fatty acid biosynthetic and beta-oxidation, including very long-chain fatty acids), with supporting signals from miscellaneous small-molecule catabolic and antibiotic biosynthetic processes. This coherence around quinone production and lipid-related metabolism best characterizes the cluster.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0017000","count":1},{"id":"GO:0042372","count":1}]},{"hash":"1389229830434497004","title":"Intracellular transport and cytoskeletal organization","description":"The terms cluster around transport and trafficking processes (nuclear import of NLS-bearing proteins, mRNA transport, vacuole fusion/inheritance) and cytoskeletal dynamics (intermediate filament assembly) with regulation by GTPases, suggesting a common theme of intracellular trafficking and cytoskeletal organization, despite some development-related terms appearing.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006607","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0051561","count":3},{"id":"GO:0051028","count":3}]},{"hash":"580529229604044332","title":"Diverse small-molecule catabolism","description":"The Top Terms cluster around catabolic processes across a range of substrates (pyruvate, taurine, mandelate, oxalate, butanediol, etc.) and related metabolic activities, plus a sporulation term, indicating a general metabolic/catabolic theme rather than a single specific pathway. This supports labeling as diverse small-molecule metabolism with catabolic emphasis.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0042867","count":2},{"id":"GO:0006086","count":2},{"id":"GO:0019529","count":2},{"id":"GO:0009851","count":2}]},{"hash":"2275049209252380688","title":"Golgi vesicle trafficking and SNARE assembly","description":"Most top GO terms describe vesicle transport related to the Golgi (ER-to-Golgi transport, Golgi organization, intra-Golgi vesicle transport, vesicle docking/fusion) and SNARE complex assembly, indicating a cluster of proteins involved in Golgi trafficking and SNARE machinery. A couple of transcription-related terms appear but seem incidental. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0045056","count":1},{"id":"GO:0007030","count":1},{"id":"GO:0048219","count":1}]},{"hash":"1392283945459308388","title":"One-carbon metabolism and nucleotide biosynthesis","description":"These terms cluster around serine/glycine metabolism, tetrahydrofolate interconversion, methylation, and dTMP (thymidylate) biosynthesis, all hallmarks of one-carbon metabolism feeding nucleotide production and methylation chemistry. Some terms hint at broader cellular regulation (interferon response, translation), but the dominant theme is one-carbon metabolism driving nucleotide synthesis. ","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032259","count":1},{"id":"GO:0006564","count":1},{"id":"GO:0034340","count":1},{"id":"GO:0051289","count":1},{"id":"GO:0019264","count":1}]},{"hash":"657891655893262785","title":"Multi-organ development","description":"The cluster's top GO terms span brain, liver, forebrain neuronal commitment, pancreatic cell differentiation, gonad, inner ear morphogenesis, uterus, pharyngeal system development, ureteric bud formation, and hematopoiesis, indicating a shared role in broad embryonic/organ development rather than a single tissue-specific function.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0021902","count":3},{"id":"GO:0003309","count":3},{"id":"GO:0008584","count":3}]},{"hash":"2293721795862261582","title":"Unknown","description":"The top terms span unrelated processes (vitamin B12 biosynthesis, amino acid biosynthesis/catabolism, fatty acid transport, circadian rhythm, fruit ripening, and a signaling pathway not obviously connected to the others), including terms from different kingdoms (Notch signaling, fruit ripening). There isn\u2019t a clear, shared function tying these proteins together, so a specific descriptive label isn\u2019t justifiable; thus Unknown with None.","confidence":"","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":2},{"id":"GO:0007219","count":1},{"id":"GO:0006546","count":1},{"id":"GO:0007623","count":1},{"id":"GO:0009835","count":1}]},{"hash":"659245922656510869","title":"DNA replication and transcription regulation","description":"This cluster is dominated by GO terms for DNA-templated transcription, its regulation, and DNA replication, including a mitotic DNA replication checkpoint signaling term, pointing to a nucleic acid metabolism and cell-cycle control theme. A few terms (nucleotide salvage and mitochondrial intermembrane space import) are less directly connected and may reflect broader or cross-functional annotations; overall the core signal is DNA replication/transcription control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006355","count":2}]},{"hash":"1254768299925901494","title":"Synaptic signaling and cytoskeletal dynamics","description":"The cluster\u2019s top GO terms point to neural communication (long-term potentiation, synaptic vesicle exocytosis, EPSP, calcium response) and cytoskeletal organization (microtubule nucleation, spindle pole body duplication), with Schwann cell development supporting nerve function. While some terms span other developmental contexts, the strongest common theme is synaptic signaling coupled with cytoskeletal dynamics.","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":5},{"id":"GO:0007520","count":5},{"id":"GO:0009738","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0007020","count":4}]},{"hash":"653692437269539892","title":"DNA replication and mitotic checkpoint regulation","description":"This cluster is enriched for DNA replication (GO:0006260) and mitotic G1 DNA damage checkpoint signaling (GO:0031571), with accompanying negative regulation of cell proliferation (GO:0008285), pointing to a core theme of DNA replication coupled with cell cycle checkpoints. Other terms related to transcription, oocyte maturation, and metal stress are present but less central to the main function.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0031571","count":3},{"id":"GO:0071276","count":3}]},{"hash":"143612526943492259","title":"Neural development and axon guidance","description":"The top GO terms are dominated by nervous system development and neuron guidance (e.g., nervous system development, cerebellar Purkinje cell layer organization, dopaminergic neuron axon guidance), indicating a coherent theme around neural development and axon pathfinding. Some terms like lipopolysaccharide response or B cell differentiation appear, but they are likely noise or broad annotations; the core signal points to neuronal development roles.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0032496","count":2},{"id":"GO:0021693","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0002315","count":2}]},{"hash":"1797303019712752570","title":"Unknown","description":"The top GO terms cover a wide and unrelated mix of sensory, developmental, metabolic, and behavioral processes, with no common theme tying all six proteins together. This prevents a coherent, specific label beyond Unknown.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0019915","count":2},{"id":"GO:0008654","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1385105612670912957","title":"Embryonic organogenesis and tissue morphogenesis","description":"The top GO terms are dominated by developmental processes across multiple tissues (mesoderm development, cartilage morphogenesis, hair follicle morphogenesis, roof of mouth/palate development, endocrine pancreas development, endocardial EMT, and trophoblast differentiation), suggesting a shared role in embryonic tissue formation rather than a single specific pathway. A background role for mRNA splicing is expected, while vitamin D biosynthesis regulation is a minor, peripheral link. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0010957","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1394396073916842325","title":"Unknown","description":"The terms are highly heterogeneous, spanning plant hormone responses, alkaloid and stilbene catabolism, lipid/phospholipid processes, and even animal-related pathways like prostaglandin and endocannabinoid signaling, with no clear common function or interaction network (edges/degree are zero). This suggests no cohesive functional theme for the cluster, so a generic Unknown label is most appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:1902348","count":1},{"id":"GO:0009820","count":1},{"id":"GO:1905344","count":1},{"id":"GO:0009086","count":1}]},{"hash":"1049648575831856778","title":"Terpenoid and isoprenoid biosynthesis","description":"The top GO terms cluster around terpenoid/isoprenoid production: monoterpene, farnesyl diphosphate, geranyl diphosphate, and geranylgeranyl diphosphate biosynthesis, as well as cholesterol and quinone biosynthesis, pointing to a shared role in isoprenoid-derived lipid and pigment pathways. A couple of more general terms like protein transport appear less central, but do not override the dominant biosynthetic signal.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043693","count":2},{"id":"GO:0045337","count":2},{"id":"GO:0051290","count":2},{"id":"GO:0033384","count":2},{"id":"GO:0006695","count":2}]},{"hash":"1924182735402843008","title":"Mitochondrial protein import and folding quality control","description":"The top GO terms cluster around mitochondrial intermembrane space protein import, chaperone-assisted refolding, and detection of misfolded proteins, indicating a mitochondrial protein handling and quality-control module. A few unrelated terms are present, but the dominant theme is mitochondrial protein import and folding.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":4},{"id":"GO:0042026","count":4},{"id":"GO:0033198","count":4},{"id":"GO:0002236","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1413769080690132825","title":"Developmental and stress-response proteins","description":"The enriched GO terms point to developmental processes (neural tube closure, forebrain development, multicellular organism development) alongside transcriptional regulation and cell cycle activity, plus stress and defense responses (ER stress\u2013driven apoptotic signaling, cadmium ion response, defense to Gram-positive bacteria). This pattern best fits a cluster of genes with roles in development that are modulated by cellular stress signals.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001403","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":5}]},{"hash":"420783039492051322","title":"Unknown","description":"Top terms span metabolism (glycolytic and carbohydrate metabolic processes, thiamine biosynthesis), innate immunity and viral-regulation (innate immune response; positive regulation of viral genome replication; negative regulation of defense response to virus by host), and development (gastrulation; neuron maturation) plus chromatin modification. There is no single cohesive function uniting these terms across the cluster, so a precise, representative label cannot be assigned. Therefore Unknown with None confidence. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045070","count":2},{"id":"GO:0050689","count":2}]},{"hash":"585766844028784934","title":"DNA Damage Response and Apoptosis Regulation","description":"The top GO terms are dominated by DNA damage response and apoptosis-related processes (e.g., negative regulation of mitotic DNA damage checkpoint; positive regulation of intrinsic apoptotic signaling in response to DNA damage; DNA double-strand break attachment to nuclear envelope) with supporting terms touching on cell cycle/chromosome organization and post-translational modification (sumoylation). This pattern suggests the proteins function together to coordinate DNA damage signaling with cell fate decisions, i.e., apoptosis, rather than a single, isolated process.","confidence":"High","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904290","count":4},{"id":"GO:1902231","count":4},{"id":"GO:0045838","count":4},{"id":"GO:1902174","count":4},{"id":"GO:0016049","count":4}]},{"hash":"695597373581909260","title":"Unknown","description":"The top GO terms are very diverse, covering apoptosis, RNA processing, multiple morphogenesis processes, chromosome separation, membrane targeting, immune differentiation, endosome transport, and radiation response. There isn't a single clear biological function or pathway tying these proteins together, so a cohesive label cannot be assigned.","confidence":"","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0060425","count":5},{"id":"GO:0051304","count":5},{"id":"GO:0090314","count":5}]},{"hash":"1447477624183547167","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0042273","count":2}]},{"hash":"150789036587517446","title":"Cardiac development and angiogenesis","description":"This cluster shows enrichment for heart development and angiogenesis terms, along with the calcineurin-NFAT signaling cascade, which is a key pathway in cardiac gene regulation and vascular formation. Despite some unrelated or obsolete terms present, the dominant cardiovascular-related signals suggest a cardiac development/signal module for this group.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042994","count":2},{"id":"GO:0033591","count":2},{"id":"GO:0051533","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1765947618932641341","title":"Neural signaling and drug responses","description":"The cluster centers on brain-related signaling and sensory processes: visual perception, dopaminergic synaptic transmission, and ERK cascade regulation in neural contexts, along with behavioral responses to drugs like morphine and cocaine. Brain renin-angiotensin signaling and prostaglandin-related responses align with neural pathways, supporting a neural signaling/theme. A few terms (macrophage chemotaxis, heart development) may reflect pleiotropic roles of shared proteins but do not override the dominant neural/drug-response signature.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0010759","count":4}]},{"hash":"2000734642066419506","title":"Granule transport and vesicle targeting","description":"The terms center on vesicle granule transport and localization (pigment and secretory granules), plus protein targeting to membranes and organelle positioning (vacuole inheritance, centrosome location). These together suggest a theme of intracellular trafficking and granule localization, even though a few terms (sensory sound perception, sperm capacitation) seem unrelated noise. Overall, the connection is present but weak, so the label is tentative.","confidence":"Low","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":1},{"id":"GO:0051904","count":1},{"id":"GO:0032252","count":1},{"id":"GO:0031585","count":1},{"id":"GO:1903919","count":1}]},{"hash":"724087359711469989","title":"DNA replication and chromosome segregation","description":"Based on the strongest terms, especially DNA replication (GO:0006260) and chromosome separation (GO:0051304), the cluster is best described as related to cell cycle and genome maintenance. Additional terms like mRNA processing and apoptotic process support broader gene expression and cell fate regulation, while some organ morphogenesis terms may reflect annotation noise or multi-functional proteins. Overall, the core theme appears to be DNA replication and chromosome dynamics within a cell-cycle context.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0060425","count":5},{"id":"GO:0051304","count":5}]},{"hash":"640383380316147561","title":"Unknown","description":"The terms are scattered across stress responses, development, immune function, and sensory processes, without a single shared function uniting the proteins. With no clear common pathway or process, the cluster cannot be reliably named beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010165","count":2},{"id":"GO:0032025","count":1},{"id":"GO:0030220","count":1},{"id":"GO:0007516","count":1},{"id":"GO:0008258","count":1}]},{"hash":"423714138061775368","title":"Retroviral genome integration and latency","description":"Based on GO terms such as DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), DNA replication, viral entry into the host nucleus, and established proviral latency, this clusterCapture appears to represent the retroviral life cycle including reverse transcription, genome integration, replication, and proviral latency within the host, with some host defense interaction.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0006278","count":5},{"id":"GO:0039651","count":5},{"id":"GO:0046718","count":5}]},{"hash":"1262268318826252408","title":"Muscle satellite cell proliferation control","description":"Dominant GO terms cluster around muscle progenitor biology: regulation of skeletal muscle satellite cell proliferation, and positive regulation of myoblast proliferation, plus related control of EGFR signaling and cell survival. Additional items touch on ECM remodeling and apoptosis, supporting muscle tissue dynamics; a couple of terms appear less related (symbiont entry, fear behavior) suggesting some noise. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007175","count":2},{"id":"GO:0014842","count":2},{"id":"GO:2000288","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0010716","count":1}]},{"hash":"1257577814507658552","title":"RNA modification and nucleotide metabolism","description":"The GO terms point to RNA processing/modification (RNA guanine-N7 methylation; tRNA metabolism; translational fidelity) combined with nucleotide metabolism activities (dUTP/dUMP/dITP catabolic and biosynthetic processes; pyrimidine ribonucleotide biosynthesis). This suggests a cohesive theme around RNA modification and maintenance of nucleotide pools required for RNA synthesis and accurate translation, even though some interactions are not shown in the edges. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:1900832","count":1},{"id":"GO:0006399","count":1},{"id":"GO:0006450","count":1},{"id":"GO:1900829","count":1}]},{"hash":"350149864634711353","title":"Regulation of inflammatory signaling and vascular remodeling","description":"Based on GO terms such as negative regulation of NF-kappaB signaling, TNF and IL-1 production, prostaglandin biosynthesis, and suppression of cell proliferation (fibroblasts, vascular smooth muscle) as well as cell-matrix adhesion, the cluster appears to group proteins that dampen inflammatory pathways and modulate vascular/ECM remodeling. Some terms (oligodendrocyte development, auxin signaling) may reflect broader developmental contexts or cross-annotation but do not overturn the core theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904706","count":6},{"id":"GO:0043124","count":6},{"id":"GO:0071460","count":6},{"id":"GO:0014003","count":6},{"id":"GO:0048147","count":6}]},{"hash":"1553606369604903909","title":"Calcium-Dependent Developmental Signaling","description":"The GO terms emphasize calcium sensing and calcium-activated signaling (detection of calcium ion; calcineurin-NFAT pathway) alongside diverse developmental and remodeling processes across tissues (Schwann cell development, lung epithelial differentiation, EMT, cardiac hypertrophy, connective tissue remodeling, thyroid hormone metabolism). This suggests a common theme of calcium-mediated regulation of development and tissue remodeling. Confidence is medium due to some terms being only loosely connected to calcium signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":2},{"id":"GO:1905205","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0005513","count":2},{"id":"GO:0014044","count":2}]},{"hash":"1767330106561490176","title":"ERK signaling and cytoskeletal remodeling","description":"The top GO terms point to ERK1/2 cascade regulation and phosphorylation processes, together with podosome and stress fiber assembly, which together suggest signaling events that drive cytoskeletal remodeling. While other terms touch on development, immunity, and sensory processes, the recurring theme is ERK-regulated signaling leading to changes in the actin cytoskeleton, such as podosome/stress fiber formation and related processes. Confidence: Medium","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0060789","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0071803","count":2}]},{"hash":"466409667838815145","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0072602","count":2},{"id":"GO:0003180","count":2},{"id":"GO:0071773","count":2},{"id":"GO:0021514","count":2}]},{"hash":"34248437082854582","title":"Oxidative Stress Response and Redox Homeostasis","description":"This cluster is dominated by GO terms for detoxifying oxidants, maintaining redox balance, and protecting the cell from oxidative damage (cellular oxidant detoxification, cell redox homeostasis, protein oxidation, UV protection, gamma radiation response). Additional terms related to wound healing and endothelial cell migration may reflect vascular remodeling under oxidative stress, while triglyceride metabolism hints at metabolic adjustment during stress. Overall, the core theme is protective responses to oxidative and environmental stress.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0006641","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0043534","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1142043143901105628","title":"RNA Pol II Transcription Initiation and DNA Integration","description":"The top terms are dominated by RNA polymerase II\u2013related transcription initiation and open complex formation, plus regulation of DNA-templated transcription, with additional terms pointing to DNA recombination/integration and RNA-templated DNA biosynthesis; a few terms hint at viral/symbiont interactions, suggesting a cluster centered on transcription initiation and DNA-templated processes with possible integration aspects.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001113","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042795","count":1}]},{"hash":"1273538191837318542","title":"SUMO/UFMylation and protein lipidation","description":"This cluster is centered on protein post-translational modifications, highlighted by sumoylation, ufmylation, and C-terminal lipidation, suggesting a common theme of modified protein function. The presence of autophagy-related terms (CVT pathway and nucleophagy) alongside these modifications indicates a link between PTMs and selective protein turnover, though some annotations (developmental or defense) may reflect broader or incidental associations.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0032258","count":3},{"id":"GO:0006501","count":3},{"id":"GO:0051726","count":3},{"id":"GO:0021764","count":3}]},{"hash":"640234525452631510","title":"Mesoderm development and angiogenesis","description":"This cluster is driven by developmental processes, with GO terms for mesoderm formation, cell morphogenesis, and angiogenesis suggesting a coordinated mesodermal/vascular program. A few terms (defense response to Gram-positive bacteria, N-acetylglucosamine metabolism) are peripheral and may reflect broader cellular roles. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1089079890442159392","title":"Cytoplasmic translation initiation machinery","description":"The top GO terms are dominated by translation initiation processes: formation of preinitiation and cytoplasmic initiation complexes, translation reinitiation, and eIF3 complex assembly, pointing to a shared role in initiating protein synthesis in the cytoplasm. Peripheral terms like DNA repair and transcription regulation are much less represented and do not define the core function. Therefore, labeling as translation initiation machinery best captures the cluster\u2019s main function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0001732","count":1}]},{"hash":"2255620335970675653","title":"Unknown","description":"The top GO terms are highly diverse (neural behavior, mitochondrial electron transport, cardiovascular regulation, GPCR signaling, kidney filtration, heat generation, light absorption, and synaptic plasticity), and there are no edges connecting the proteins. This dispersion indicates there is no single cohesive function or pathway tying these proteins together, so the cluster is best labeled Unknown with no confidence.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":5},{"id":"GO:0022900","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0010579","count":5}]},{"hash":"1159994838318777492","title":"Neural Development and Synapse Formation","description":"The top GO terms are dominated by brain development, inner ear development, locomotory behavior, and synapse assembly, indicating a cohesive neural/sensory development theme. While other development terms appear (lung, cartilage, gonad, fertilization, transcription regulation), the strongest signals point to neural and synaptic processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0007626","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0045317","count":3},{"id":"GO:0051965","count":3}]},{"hash":"1332136752813958232","title":"RNA splicing and rRNA processing","description":"The top GO terms are dominated by RNA processing: mRNA splicing via spliceosome and spliceosomal snRNP assembly, plus rRNA processing. These strongly suggest a core involvement in nuclear RNA maturation. Peripheral terms such as cell cycle, DNA integration, and viral budding appear less directly connected, potentially reflecting broader or incidental annotations in this small set. Overall, the strongest signal is RNA processing/splicing, justifying the label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000387","count":1},{"id":"GO:2000825","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0019629","count":1}]},{"hash":"723555642441046036","title":"Neural and inner ear development","description":"The top GO terms point to brain/midbrain development, inner ear and sensory (sound) development, and specific neural cell types like Purkinje neurons, plus aspects of microtubule organization linked to planar polarity\u2014together indicating neural and sensory organ development. A minority term about transcription regulation or endothelial barrier is less central to the main theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0007420","count":5},{"id":"GO:1903142","count":4},{"id":"GO:0000122","count":3}]},{"hash":"867089323271922267","title":"Ubiquitin-Dependent ERAD and PTMs","description":"The cluster is dominated by terms related to ubiquitin pathways (ubiquitin-dependent ERAD, ER-associated ubiquitin-dependent protein catabolic process, free ubiquitin chain polymerization) and post-translational modifications (sumoylation, phosphorylation), pointing to a cohesive theme of ubiquitin-mediated protein quality control and signaling, with some neural-retina terms likely incidental. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003407","count":2},{"id":"GO:0014823","count":2},{"id":"GO:0030433","count":2},{"id":"GO:1903071","count":1},{"id":"GO:1904049","count":1}]},{"hash":"732878811419767494","title":"Vertebrate organogenesis and neural differentiation","description":"The proteins are associated with diverse developmental processes across organs (gonads, uterus, digestive tract, kidneys) and neural development (hindbrain, visceral motor neurons, heart conduction system). This suggests a theme of broad embryonic development and differentiation rather than a single, specific function, so a label centered on vertebrate organogenesis and neural differentiation best captures the shared concept.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":2},{"id":"GO:0048565","count":2},{"id":"GO:0060065","count":2},{"id":"GO:1904081","count":1},{"id":"GO:0045686","count":1}]},{"hash":"1131634815109914964","title":"Mitochondrial and Chloroplast Protein Import","description":"The cluster is strongly enriched for GO terms about importing proteins into organelles, notably into the mitochondrial matrix (GO:0030150) and chloroplast stroma (GO:0045037), plus insertion into the mitochondrial inner membrane (GO:0045039). This points to a shared function of targeting and integrating proteins into mitochondria and chloroplasts, consistent with organelle protein import pathways in plants. ","confidence":"High","size":6,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":3},{"id":"GO:0045037","count":2},{"id":"GO:0000002","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0032094","count":2}]},{"hash":"1556872997335214256","title":"DNA Damage Response and Apoptosis","description":"The dominant GO terms are apoptotic process and DNA repair, pointing to a function related to cellular responses to DNA damage and the decision between repair and apoptosis. Other terms appear less coherent or obsolete, suggesting some noise, but the core theme centers on genome integrity maintenance and programmed cell death.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0009086","count":1},{"id":"GO:0042558","count":1}]},{"hash":"963089628927547106","title":"Neural development and glial scaffolding","description":"The cluster is enriched for nervous system\u2013related terms: dendrite morphogenesis, radial glial scaffold formation, nervous system development, and neuron maturation regulation, along with adhesion and GPCR signaling that support neural development and glial interactions. While there is a diverse set of terms, the strongest theme centers on neural development and glial scaffold formation, with supporting cytoskeletal and signaling processes.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048813","count":3},{"id":"GO:0035099","count":3},{"id":"GO:0038027","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0021943","count":3}]},{"hash":"1830180556315820365","title":"Neural development and axon guidance","description":"Top GO terms cluster around nervous system development and axon-related processes, including peripheral nervous system development, neuron cell-cell adhesion, positive regulation of axonogenesis, and fasciculation of sensory neuron axons. This suggests the proteins are involved in neural development and axon guidance, with some broader terms like apoptotic process or signaling pathways mentioned as ancillary. Confidence: High","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0007158","count":5},{"id":"GO:0042517","count":5},{"id":"GO:0007422","count":5},{"id":"GO:0050772","count":5}]},{"hash":"2206343052909478727","title":"Carbohydrate Storage Biosynthesis and Signaling","description":"The cluster shows strong representation of carbohydrate biosynthetic processes (starch, amylopectin, glycogen, glycogen biosynthesis, and related metabolic steps) and related energy-storage pathways (fatty acid biosynthesis), along with a response to sucrose. Coupled with regulatory terms like regulation of protein kinase activity, protein heterooligomerization, and signal transduction, the data point to coordinated carbohydrate metabolism and signaling control. The nail development term appears as an outlier rather than central to the cluster\u2019s theme.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045859","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0035878","count":1},{"id":"GO:0019252","count":1},{"id":"GO:0005980","count":1}]},{"hash":"864118831897232359","title":"ER Stress Response and Protein Folding","description":"This cluster is dominated by GO terms for unfolded protein response, chaperone-assisted refolding, ER-associated degradation, and ER stress\u2013triggered regulation of translation initiation, indicating a coherent theme of endoplasmic reticulum quality control and protein folding. Some terms are less related (developmental or signaling terms), but they are less frequent, so the core theme is ER stress response and protein folding.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0036494","count":4},{"id":"GO:0030433","count":3},{"id":"GO:0071374","count":2}]},{"hash":"143495992236561007","title":"Unknown","description":"The top GO terms span DNA transcription, DNA replication, translation initiation, cell cycle, TORC1 signaling, and diverse developmental and immune-related processes, suggesting no single cohesive function tying these proteins together. The cluster appears functionally heterogeneous, so a single interpretable label is not-supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:1904263","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0050830","count":2}]},{"hash":"140188986308237202","title":"Unknown","description":"The terms span vision, immune/coagulation, adhesion, plant chlorophyll biosynthesis, ECM remodeling and development, with no clear shared function linking the proteins. With no edges or coherent GO signal, there isn't a unifying theme to assign a descriptive label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050908","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0006956","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0034113","count":1}]},{"hash":"1588533997303181393","title":"Steroid and Lipid Biosynthesis","description":"The proteins are enriched for biosynthetic processes of steroid hormones (testosterone, estrogen, androgen) and various lipid-related pathways (sphingolipid, mycolic acid, retinal/retinol), suggesting a core theme of lipid and steroid biosynthesis across organisms; other biosynthetic terms appear as broader signals but do not contradict this theme.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":3},{"id":"GO:0071768","count":3},{"id":"GO:0030148","count":3},{"id":"GO:0006703","count":3},{"id":"GO:0006355","count":3}]},{"hash":"681974189554132157","title":"Epigenetic regulation in development and cell cycle","description":"The top GO terms point to core processes of cell division (mitotic cell cycle, APC-dependent catabolic process) and development (multicellular organism development, skeletal system development) along with transcriptional activity (DNA-templated transcription) and hints of chromatin regulation (histone methylation regulation terms, albeit marked obsolete). This combination suggests a theme where epigenetic control of gene expression coordinates both cell cycle progression and developmental programs, making this a cohesive cluster label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0031145","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0050830","count":3}]},{"hash":"634056089825111953","title":"Unknown","description":"The top GO terms are highly diverse\u2014chlorophyll biosynthesis, ubiquitin-dependent protein degradation, proteasome assembly, stamen formation, acute-phase response, hyaluronan metabolism, post-translational modifications, DNA recombination, and Golgi to plasma membrane transport\u2014showing no single shared function. With no edges and no cohesive theme, a meaningful cluster label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0048455","count":1},{"id":"GO:0006953","count":1}]},{"hash":"1271918982410261497","title":"Neuronal development and growth signaling","description":"This cluster is enriched for neural development terms (forebrain development, neuron projection development) and cytoskeletal remodeling (Arp2/3\u2013mediated actin nucleation), pointing to roles in neurite outgrowth and neural connectivity. Growth-related signaling terms (growth hormone response, TORC1 regulation) and nutrient signaling (nutrient, glucose signaling) further support a neuronal growth/signaling theme, while ubiquitin\u2013proteasome degradation, splicing, and cell-cycle terms may reflect broader cellular housekeeping accompanying neural development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007584","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0031175","count":2}]},{"hash":"1318841420810805738","title":"Diverse Transmembrane Transporters","description":"This cluster\u2019s GO terms are dominated by transmembrane transport activities for a range of substrates (ions, sugars, vitamins, and related nutrients) and includes neurotransmitter loading into synaptic vesicles, pointing to a set of membrane transporter proteins with diverse substrate specificities. ","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0015706","count":2}]},{"hash":"2290124370984866576","title":"Visual signal transduction regulation","description":"This cluster is enriched for GO terms tied to vision and GPCR signaling: regulation of opsin-mediated signaling, visual perception, adenylate cyclase activation, and cAMP signaling, plus calcium release and protein phosphorylation, all hallmark steps in phototransduction pathways. The presence of GTPase regulation also fits downstream GPCR signaling. Some terms (heart development, amphetamine response) are broader or context-dependent, but do not derail the central theme around visual signal transduction.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022400","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0043950","count":5}]},{"hash":"1949498077029627184","title":"Unknown","description":"The top GO terms span sensory organ and neural development (inner ear, Purkinje cells), cell adhesion, planar polarity, endothelial barrier regulation, melanin biosynthesis, and ureter maturation, with no single cohesive function linking all proteins. The terms suggest diverse developmental roles across tissues rather than a shared pathway, so a single interpretable cluster label isn\u2019t evident.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0003165","count":5},{"id":"GO:0090176","count":5},{"id":"GO:1903142","count":5}]},{"hash":"1412893290299493434","title":"Neuronal signaling and memory components","description":"The top terms include excitatory postsynaptic potential, detection of calcium ion, and long-term memory, all of which point to neuronal signaling and synaptic activity. Secretory granule localization further supports a role in regulated neurotransmitter or neuropeptide release. While other terms touch on metabolism or development, the neural-related terms are the strongest signal for a coherent cluster theme. Overall, the cluster is best described as neuronal signaling and memory-related components.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0006256","count":1},{"id":"GO:0046712","count":1},{"id":"GO:0060465","count":1},{"id":"GO:0030166","count":1}]},{"hash":"640163071290663785","title":"Dendrite morphogenesis and CNS neuron development","description":"The GO terms cluster around neuronal growth and connectivity, with multiple entries for dendrite morphogenesis, dendrite development, CNS neuron development, neuron projection development, and cerebral cortex development, indicating a core role in neuronal maturation and dendritic architecture. Neuropeptide signaling and CNS-related terms further support neural function, while lysosome-related terms may reflect intracellular trafficking in neurons rather than a core function. Overall, the theme is neuronal development and dendritic formation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048813","count":1},{"id":"GO:1900006","count":1},{"id":"GO:0007041","count":1},{"id":"GO:0007040","count":1},{"id":"GO:0032418","count":1}]},{"hash":"2057700876128315356","title":"Brain development and neuroendocrine regulation","description":"This cluster centers on neural development and neuroendocrine control: terms for cerebral cortex regionalization, blood-brain barrier establishment, and motor learning point to brain maturation, while regulation of corticosterone and growth hormone secretion, and somatotropin cell development indicate endocrine control linked to development and function. A few cardiovascular-related terms are present, but the dominant theme is neurodevelopment coupled with hormonal regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0021796","count":2},{"id":"GO:2000852","count":2},{"id":"GO:0090210","count":2},{"id":"GO:0048496","count":2}]},{"hash":"1593901452152377629","title":"Ubiquitination and ERAD processes","description":"The top GO terms are dominated by ubiquitination activities (protein ubiquitination, polyubiquitination, K63-linked ubiquitination, autoubiquitination) and ER-associated degradation (ERAD), with a few other terms related to signaling and regulatory responses. This suggests the cluster groups proteins involved in Ub-tagging and degradation pathways, with some ancillary roles in immune signaling and calcium/GTPase regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:1903244","count":3},{"id":"GO:0070534","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1520674202067173856","title":"GPCR-Mediated Blood Pressure Regulation","description":"The cluster is characterized by GO terms for adenylate cyclase-activating GPCR signaling, positive regulation of blood pressure, and vasoconstriction, pointing to GPCR-driven signaling that modulates vascular tone and blood pressure. While terms like electron transport and light absorption appear, the dominant theme centers on GPCR signaling impacting cardiovascular regulation, with some peripheral metabolic or photoreceptor-related associations.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0003093","count":4}]},{"hash":"1842613204894085315","title":"Carbohydrate Transport and Metabolism","description":"The top terms cluster around uptake and processing of sugars (glucose, fructose, xylose, lactose) and related transport, including glucose import, dehydroascorbic acid transport, and L-ascorbic acid metabolism. This points to a cohesive theme of carbohydrate transport and metabolism, with osmotic response potentially linked to sugar balance. Confidence: High","confidence":"High","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":6},{"id":"GO:0071332","count":6},{"id":"GO:0019852","count":6},{"id":"GO:0043252","count":6},{"id":"GO:0005989","count":6}]},{"hash":"721867696023129295","title":"Ubiquitin-Dependent ERAD and Autoubiquitination","description":"The top GO terms are dominated by protein autoubiquitination and the ubiquitin-dependent ERAD pathway, pointing to a core theme of ubiquitin-mediated protein quality control and degradation. The remaining terms are more diverse and likely incidental given the small cluster size, but the two strongest signals justify a ubiquitin-centered label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000122","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0042759","count":1}]},{"hash":"2093875307296742053","title":"Amino acid biosynthesis and related metabolism","description":"Most of the top GO terms are biosynthetic processes for amino acids (tyrosine, alanine, histidine, phenylalanine) and other small-molecule biosynthesis (porphyrin, sphinganine). This suggests a metabolic cluster focused on biosynthesis pathways. A couple terms (Notch signaling, fruit ripening, transcription) are less coherent but may reflect broader regulatory roles or annotation noise. Overall, the shared theme is biosynthesis of amino acids and related metabolites.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006571","count":4},{"id":"GO:0042853","count":4},{"id":"GO:0007219","count":3},{"id":"GO:0055089","count":3},{"id":"GO:0046511","count":3}]},{"hash":"90810167465109460","title":"Energy metabolism and quinone biosynthesis","description":"The GO terms cluster around central energy production and electron transport: glycolysis, TCA cycle, glyoxylate cycle, fatty acid beta-oxidation, and valine catabolism, complemented by biosynthesis of quinones (menaquinone and phylloquinone) that feed respiration. Antibiotic biosynthesis appears but does not define the primary theme. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0042372","count":4},{"id":"GO:0006635","count":4}]},{"hash":"1590538601697441991","title":"DNA replication licensing & chromatin dynamics","description":"The top GO terms strongly point to DNA replication licensing (MCM complex assembly; pre-replicative complex assembly; premeiotic DNA replication) and chromatin organization (subtelomeric heterochromatin formation; chromatin silencing). The presence of other terms like photosynthesis and xenobiotic response may reflect annotation noise or cross-species matches, but the core signal is replication readiness and chromatin regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071466","count":5},{"id":"GO:0072689","count":5},{"id":"GO:0006267","count":5},{"id":"GO:0006279","count":5},{"id":"GO:0015979","count":5}]},{"hash":"517415658855273293","title":"Mitochondrial dynamics and signaling","description":"Major terms center on mitochondrial dynamics and energetics\u2014stress-induced fusion, inheritance, membrane potential, and cardiolipin metabolism\u2014indicating the proteins are involved in mitochondrial function. While signaling and immune/neural terms are present (PKC signaling, dopaminergic synaptic regulation), the mitochondrial processes dominate, justifying a label focused on mitochondria.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032623","count":1},{"id":"GO:0060355","count":1},{"id":"GO:1990046","count":1},{"id":"GO:0000001","count":1},{"id":"GO:0032226","count":1}]},{"hash":"26920343568052369","title":"Genome replication and protein homeostasis","description":"The cluster includes clear DNA replication terms (mitotic DNA replication checkpoint signaling, leading strand elongation) alongside protein quality control/processes (protein processing, proteasomal protein catabolic process, mitochondrial protein import) and energy-related terms (ATP metabolism, regulation of aerobic respiration). This pattern suggests a module where genome replication processes are coordinated with protein processing/degradation and energy supply, leading to the label Genome replication and protein homeostasis. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0033314","count":3},{"id":"GO:0046034","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0006272","count":3},{"id":"GO:1903715","count":3}]},{"hash":"545167414096457491","title":"Neural development and brain morphogenesis","description":"This cluster shows enrichment for neural differentiation and brain-related morphogenesis terms (neuron differentiation, visceral motor neuron differentiation, rhombomere 2 development, forebrain morphogenesis, locomotory behavior) and transcription by RNA Pol II, indicating a cohesive theme of neural development and brain patterning. Some kidney-related morphogenesis terms appear but do not dominate the set; overall, neural development is the strongest shared function.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904081","count":3},{"id":"GO:0045686","count":3},{"id":"GO:0072095","count":3},{"id":"GO:0021568","count":3},{"id":"GO:0035849","count":3}]},{"hash":"864204154232594909","title":"Neural differentiation and synaptic signaling","description":"The cluster is enriched for neural-related processes: neuron differentiation, excitatory postsynaptic potential, and calcium ion detection, pointing to roles in neural development and synaptic signaling. Some terms (meiotic checkpoint signaling, trinucleotide repeat maintenance, EMT regulation, metal ion response) are less aligned, suggesting possible annotation noise or pleiotropy. Overall, the dominant neural and synaptic terms support a neural differentiation/signal transduction theme.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030182","count":4},{"id":"GO:1905205","count":3},{"id":"GO:0072462","count":3},{"id":"GO:0031987","count":3},{"id":"GO:1902660","count":3}]},{"hash":"1277809904036819693","title":"Chemical and oxidative stress response","description":"These proteins are linked to a range of GO terms describing responses to diverse chemical stimuli (vitamins, metal ions, LPS, arsenic, methylmercury) and oxidative stress. The common thread is mounting a defensive or adaptive response to environmental/chemical stress, rather than a single specific pathway, so the label reflects the broad stress-response theme of the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010266","count":1},{"id":"GO:0032025","count":1},{"id":"GO:0006979","count":1},{"id":"GO:0051384","count":1},{"id":"GO:0033197","count":1}]},{"hash":"1185160350846644322","title":"Vertebrate development and retinoic acid signaling","description":"These proteins appear linked to vertebrate developmental programs: neural crest development and ureter maturation point to organogenesis, while cellular response to retinoic acid ties to a key morphogenic signaling pathway. Endothelial proliferation suggests vascular remodeling in development, and the other terms reflect environmental and metabolic cues that modulate growth. Overall, the cluster seems to represent developmental morphogenesis regulated in part by retinoic acid signaling.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":5},{"id":"GO:0001936","count":5},{"id":"GO:0006678","count":5},{"id":"GO:0060013","count":5},{"id":"GO:0014032","count":5}]},{"hash":"2004575897391006444","title":"Flavonoid and lignin biosynthesis","description":"The GO terms cluster around production of flavonoids (anthocyanin, cyanidin glucoside) and lignin, indicating involvement in plant secondary metabolite biosynthesis; auxiliary terms for glycosylation and bacterial cell wall components are present but less representative.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016999","count":2},{"id":"GO:0009247","count":2},{"id":"GO:0009718","count":2},{"id":"GO:0009808","count":2},{"id":"GO:0006488","count":2}]},{"hash":"1647221372887538986","title":"Bacterial Biosynthesis Pathways","description":"The top GO terms cluster around diverse biosynthetic processes, especially fatty acid/lipid, menaquinone, siderophore, and lipoteichoic acid biosynthesis, which align with bacterial metabolism and cell envelope biosynthesis; a few terms like seed coat development and bioluminescence appear as broader or outlier annotations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019427","count":3},{"id":"GO:0000038","count":3},{"id":"GO:0006633","count":3},{"id":"GO:0008206","count":3},{"id":"GO:0070395","count":3}]},{"hash":"1587602887640628296","title":"Developmental differentiation and morphogenesis","description":"This cluster shows a broad theme of developmental processes: neural and cardiac differentiation, neuron guidance, ectoderm formation, and morphogenesis across kidney and plant tissues, along with signaling and adhesion pathways. The GO terms point to general developmental regulation and tissue morphogenesis rather than a single, narrow pathway, so a broad label like developmental differentiation and morphogenesis fits best.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":2},{"id":"GO:0055011","count":2},{"id":"GO:2000691","count":2},{"id":"GO:0008045","count":2},{"id":"GO:0060396","count":2}]},{"hash":"550618574747107140","title":"Brain development and neural signaling","description":"The top GO terms cluster around nervous system development, brain and hippocampus development, and neuronal signaling pathways (ERK/JNK cascades) as well as synaptic vesicle processes, indicating a cohesive role in neural development and synaptic communication.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0043525","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1397707799653445577","title":"Steroid and lipid biosynthesis","description":"The top GO terms are dominated by biosynthetic processes for steroids (testosterone, estrogen, androgen) and various lipids (mycolic acid, sphingolipid, retinol/retinal metabolism), indicating a shared function related to lipid/steroid biosynthesis and metabolism. A few terms (acetoin catabolic process, regulation of DNA-templated transcription) are less central but do not outweigh the clear lipid/steroid biosynthetic theme. This suggests the cluster centers on enzymes and factors involved in lipid and steroid biosynthesis pathways.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0071768","count":5},{"id":"GO:0030148","count":5},{"id":"GO:0006703","count":5},{"id":"GO:0006355","count":5}]},{"hash":"1488097948601179658","title":"Sugar and Vitamin Transporters","description":"These proteins cluster around transmembrane transport of sugars and vitamins (vitamin transmembrane transport, sugar transport including glucose, fructose, xylose, lactose, and dehydroascorbic acid/ascorbic acid). They also touch on vitamin C metabolism and cellular responses to sugar availability, suggesting a coherent group of membrane transporters linked to carbohydrate and vitamin transport and metabolism.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0042149","count":3},{"id":"GO:0071332","count":3},{"id":"GO:0019852","count":3}]},{"hash":"1134818978368467327","title":"Amino Acid Biosynthesis","description":"The top GO terms point to multiple amino acid biosynthetic processes (tryptophan, histidine, citrulline) and related metabolic pathways, suggesting the cluster centers on amino acid production. While some terms relate to cellular stress or hormonal responses, the strongest shared signal is biosynthesis of amino acids.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000162","count":1},{"id":"GO:0060416","count":1},{"id":"GO:0044344","count":1},{"id":"GO:0071548","count":1},{"id":"GO:1903718","count":1}]},{"hash":"1486547682016880169","title":"Mitotic spindle assembly and cytokinesis","description":"The top terms cluster around microtubule nucleation and organization, mitotic spindle midzone assembly, and general cell division and cell cycle, plus septum assembly, pointing to a shared role in spindle dynamics and cytokinesis during mitosis. Some terms like neuron differentiation and interleukin-4 response may reflect broader regulatory connections but do not define the core function.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007020","count":5},{"id":"GO:1905792","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0030182","count":5},{"id":"GO:0071353","count":5}]},{"hash":"80685036815525517","title":"Stress-Responsive RNA Processing and Translation","description":"The proteins cluster around RNA metabolism and translation control, with terms on mRNA stability, alternative splicing, translation reinitiation, and small-subunit processome assembly, plus stress/hypoxia and viral translation-related terms. This suggests a cohesive theme of RNA processing and translational regulation under stress conditions.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:1901407","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001825","count":3}]},{"hash":"679062287110333661","title":"Calcium-Dependent Synaptic Signaling and Plasticity","description":"The terms cluster around neuronal signaling and calcium-dependent processes: calcium detection, regulation of vesicle exocytosis, excitatory postsynaptic potentials, memory-related functions, and calcium-modulated signaling (including Wnt pathways). Together they point to a shared theme of calcium-regulated synaptic communication and plasticity, with a few adjacent processes. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905205","count":5},{"id":"GO:0007616","count":5},{"id":"GO:0003073","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0005513","count":5}]},{"hash":"484400794732679781","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0009432","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0032508","count":2}]},{"hash":"191348497729733256","title":"Telomere maintenance and replication fork dynamics","description":"The terms cluster around telomere maintenance (telomere maintenance, telomerase regulation) and replication fork processes (progression, reversal, related DNA unwinding and primer removal), with additional DNA recombination context. This suggests a coherent theme of genome stability via telomere biology and replication fork regulation.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1903469","count":4},{"id":"GO:0000002","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0044806","count":4},{"id":"GO:0032211","count":4}]},{"hash":"955837260658950410","title":"Transmembrane Ion and Metabolite Transport","description":"The top GO terms center on diverse transmembrane transport activities, including potassium and sodium ions, various metabolites (citrate, malate, succinate), and phosphate transport regulation. This pattern strongly indicates a cluster of membrane transporter proteins handling ion and metabolite flux, with a secondary link to metabolic stress responses such as glucose starvation. Confidence: High","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":2},{"id":"GO:0006814","count":1},{"id":"GO:0098656","count":1},{"id":"GO:0015746","count":1},{"id":"GO:0055085","count":1}]},{"hash":"660190101020486475","title":"Carbohydrate Transport and Metabolism","description":"The GO terms cluster around transport of sugars and related metabolites (galactose, glucose, fructose, xylose), various ion and organic anion transport, and responses to glucose/fructose and insulin signals. This suggests a functional group tied to carbohydrate handling and transport rather than a single enzymatic activity, hence the label Carbohydrate Transport and Metabolism.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0071332","count":2},{"id":"GO:0019852","count":2},{"id":"GO:0043252","count":2}]},{"hash":"1636321966179878695","title":"Unknown","description":"The listed GO terms span translation, proteasomal ubiquitin-dependent protein degradation, mitochondrial energy production, and diverse signaling and developmental processes, with no clear single function tying all proteins together in this cluster.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0042775","count":1},{"id":"GO:0061179","count":1},{"id":"GO:0007288","count":1}]},{"hash":"171723696097870826","title":"Ubiquitin-Dependent Protein Turnover and Mitophagy","description":"These proteins cluster around ubiquitin-mediated regulation (sumoylation, deubiquitination) and ER-associated degradation, together with autophagy/mitophagy and mitochondrial dynamics (mitophagy, regulation of mitochondrial fusion). This suggests a core theme of protein quality control and mitochondrial maintenance via ubiquitin pathways. Some terms related to transcription regulation and spindle pole body duplication appear as secondary associations but do not define the main function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":5},{"id":"GO:1904049","count":5},{"id":"GO:1901097","count":5},{"id":"GO:0016925","count":5},{"id":"GO:0017085","count":5}]},{"hash":"878436202152705009","title":"Mitotic DNA replication and cell-cycle regulation","description":"This cluster centers on mitotic DNA replication, mitotic cell cycle processes, DNA damage response, and spindle/centromere checkpoint signaling, with elements of meiosis-related checkpoints and chromatid cohesion. The shared theme is regulation of DNA replication and chromosome segregation during cell division, ensuring genomic integrity.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:1902983","count":2},{"id":"GO:0042772","count":1},{"id":"GO:0010719","count":1},{"id":"GO:1905318","count":1}]},{"hash":"1466229005826720530","title":"NF-\u03baB Inhibition and Inflammatory Regulation","description":"The cluster is driven by GO terms related to negative regulation of NF-\u03baB signaling, IL-1\u03b2 production, and prostaglandin biosynthesis, pointing to a theme of dampening inflammatory pathways, with supporting terms on DNA damage response and cell proliferation modulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:0071285","count":2},{"id":"GO:1904706","count":1},{"id":"GO:0071460","count":1},{"id":"GO:0043517","count":1}]},{"hash":"1199394961032432159","title":"Translation and ubiquitin-autophagy quality control","description":"The top terms show protein synthesis (translation) as well as ubiquitin-related processes (sumoylation, deubiquitination) and autophagy/mitophagy, with additional stress-response signals (antibiotic/insecticide). This suggests a cohesive theme around proteostasis: proteins involved in translation coupled with ubiquitin- and autophagy-mediated quality control to manage damaged or misfolded proteins. Overall, a coherent label is translation and ubiquitin-autophagy quality control, though the cluster also hints at broader stress responses. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0046677","count":2},{"id":"GO:1903071","count":1},{"id":"GO:1904049","count":1},{"id":"GO:1901097","count":1}]},{"hash":"2229224411894769675","title":"Nuclear ribosome biogenesis and DNA replication","description":"The top GO terms strongly point to nuclear processes: regulation of DNA-templated DNA replication initiation and pre-replicative complex assembly in the nucleus, along with ribosome biogenesis activities such as ribosomal subunit export, maturation of LSU rRNA, and large subunit assembly. While there are a few peripheral terms (estrogen response, cardiac proliferation, metabolism), the core cluster centers on nuclear growth machinery involving DNA replication readiness and ribosome production.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030174","count":2},{"id":"GO:0006267","count":2},{"id":"GO:0071391","count":1},{"id":"GO:0000054","count":1},{"id":"GO:0000463","count":1}]},{"hash":"788720840789390179","title":"Translation Regulation and Cell Cycle Control","description":"This cluster shows a mix of translation-related terms (translation, translation initiation, cytoplasmic translation) together with mitotic cell cycle regulation (exit from mitosis, G2/M transition) and proteolysis (ubiquitin-dependent degradation), with development as a broader context. The strongest theme is the coordination of protein synthesis with cell cycle progression.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0001732","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0006413","count":1},{"id":"GO:2000766","count":1}]},{"hash":"1288891812897049338","title":"DNA replication and recombination regulation","description":"The cluster\u2019s top GO terms center on nucleic acid processes\u2014DNA unwinding in replication, regulation of DNA-templated transcription, and meiotic/replication fork\u2013related recombination\u2014suggesting a core theme of DNA replication and recombination, with several metabolism/development terms as outliers.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006268","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0061370","count":2}]},{"hash":"571486104205759894","title":"DNA Transposition and Transcription Regulation","description":"The top GO terms cluster around DNA mobility (transposition, DNA recombination, DNA integration) and transcriptional regulation (positive/negative regulation of transcription by RNA Pol II), with a few unrelated metabolic terms likely due to broad annotations. This suggests a theme of genome dynamics coupled with transcription control rather than a single clear pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032196","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0006718","count":1},{"id":"GO:0018364","count":1}]},{"hash":"102752829744184540","title":"Brain and inner ear development","description":"This cluster is dominated by GO terms related to neural and auditory system development (brain development, inner ear development, sensory perception of sound) and supporting processes like neuron\u2013cell adhesion and microtubule organization in planar polarity. While a few annotations touch other developmental areas (melanin biosynthesis, ureter maturation), the core signals point to brain/ear developmental programs.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0003165","count":2},{"id":"GO:0090176","count":2}]},{"hash":"1338920095325603327","title":"Auditory startle reflex and glycinergic signaling","description":"This cluster centers on neural responses to auditory stimuli and rapid reflexes (startle, righting reflex, sensory perception of sound) and includes glycinergic synaptic transmission and serotonin receptor signaling, pointing to a reflex- and neurotransmission-focused neural module. The amyloid-related terms appear ancillary rather than core to the reflex/synaptic theme.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001964","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0060013","count":4},{"id":"GO:0002087","count":4},{"id":"GO:0007210","count":4}]},{"hash":"160415019516521020","title":"Brain and Spinal Cord Development","description":"The top GO terms are dominated by nervous system development, including brain development, midbrain development, dorsal spinal cord development, neuron differentiation, and locomotory behavior, suggesting the proteins in this cluster are primarily involved in neural development rather than other organ systems. Some terms about pancreas development and ureteric bud branching appear as outliers, likely reflecting pleiotropic or shared developmental roles rather than a core kidney/pancreas function for this cluster.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0030901","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0003309","count":2},{"id":"GO:0007420","count":2}]},{"hash":"273110587848933316","title":"Auditory Ear Development and Cochlear Synapses","description":"This cluster centers on hearing-related processes: sensory perception of sound and inner ear development, plus GABAergic synaptic transmission relevant to auditory neural circuits. The microtubule organization term linked to planar polarity fits hair-cell stereocilia orientation in the cochlea, strengthening the hearing-focused theme. Some terms (Purkinje development, melanogenesis, ureter maturation) are peripheral to hearing but may reflect broader neuronal development context. Overall, the theme is ear development and auditory synaptic function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0051932","count":3},{"id":"GO:0048839","count":2},{"id":"GO:0003165","count":2},{"id":"GO:0090176","count":2}]},{"hash":"2072201612921020493","title":"Neural development and regionalization","description":"The top GO terms point to neural development across multiple regions: spinal cord interneuron specification, cerebral cortex regionalization, retina and inner ear development, habenula formation. Although several obsolete transcription-regulation terms appear (likely noise), the shared theme is neural development and regional patterning rather than a single pathway. This supports a broad neural development cluster rather than a specific function.","confidence":"Low","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0021913","count":3},{"id":"GO:0021918","count":3},{"id":"GO:0021902","count":3},{"id":"GO:0021527","count":3}]},{"hash":"421392099337553835","title":"Auditory and Neural Development","description":"Top terms indicate a core focus on hearing and neural formation: sensory perception of sound, inner ear development, brain development, and neuron\u2013cell adhesion, with supporting references to Purkinje-related development and planar polarity in the microtubule cytoskeleton. A few outliers (endothelial barrier regulation, melanin biosynthesis, ureter maturation) may reflect broader developmental roles or annotation noise, but the dominant signal aligns with auditory-related neural development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0003165","count":4}]},{"hash":"2246326288666821892","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0015031","count":1},{"id":"GO:0032979","count":1},{"id":"GO:0000467","count":1}]},{"hash":"878701139963562763","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0071318","count":1},{"id":"GO:0030836","count":1},{"id":"GO:0006114","count":1}]},{"hash":"721725250934346154","title":"Unknown","description":"The listed GO terms span lipid metabolism (phosphatidylcholine metabolism, lipid catabolic process, cardiolipin biosynthesis), development/morphogenesis contexts (P granule organization, cell morphogenesis in fusion, ascospores assembly), and signaling/hormonal pathways (abscisic acid signaling, nitrogen utilization), with no clear shared function tying all five proteins together. The absence of edges and cohesive biological process suggests no single representative function for this cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030719","count":1},{"id":"GO:0046470","count":1},{"id":"GO:0048017","count":1},{"id":"GO:0000753","count":1},{"id":"GO:0032534","count":1}]},{"hash":"1395765247865829702","title":"RNA decay and stress granule regulation in antiviral signaling","description":"The top GO terms point to RNA metabolism and granule dynamics (stress granule and P-body assembly, deadenylation-dependent and -independent decay, translational initiation regulation) alongside innate immune signaling (RIG-I pathway and positive regulation of interferon signaling). This suggests a cluster of proteins involved in coordinating mRNA turnover and translational control during antiviral responses, with stress granules and P-bodies acting as hubs. Some terms like cobalamin/nicotinamide metabolism appear incidental. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006461","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0060340","count":1},{"id":"GO:0034063","count":1},{"id":"GO:0031087","count":1}]},{"hash":"543813406546450345","title":"Tissue development and cell migration","description":"The top GO terms point to multiple tissue development programs (renal system development, skin development, dorsal trunk growth) alongside cell movement and adhesion processes (extravasation, leukocyte tethering/rolling, cell-matrix adhesion, axon extension). This suggests a cohesive theme of tissue morphogenesis linked with migratory and adhesive functions, rather than a single specific pathway.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072001","count":1},{"id":"GO:0001573","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0050901","count":1},{"id":"GO:0045124","count":1}]},{"hash":"1716462546301358538","title":"Developmental cell adhesion and tissue morphogenesis","description":"These proteins link adhesion to broad developmental processes, with emphasis on cell-matrix adhesion (including calcium-independent adhesion) and tissue morphogenesis, as well as neural and vascular/heart development cues such as Purkinje cell layer organization, dendrite regeneration, tangential migration, endocardial cushion development, and VEGF signaling. The cluster appears to capture a theme of developmental remodeling involving extracellular interactions rather than a single specific pathway.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0021693","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0007161","count":4},{"id":"GO:0031104","count":4}]},{"hash":"1847064943519178380","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development and synaptic function (Schwann cell development, axonogenesis, visual perception, EPSP, long-term potentiation), suggesting these proteins are involved in neural development and synaptic activity. Some terms refer to apoptosis or cell cycle, but the neural development/synaptic theme is predominant.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014044","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0007601","count":3}]},{"hash":"406298728746734496","title":"Epithelial signaling, polarity, and endocytosis","description":"The GO terms cluster around receptor-mediated signaling (EGFR, Wnt, ephrin), establishment/maintenance of cell polarity and tight junction assembly, and membrane trafficking processes like endocytosis, plus regulation of GTPase activity. This points to a cohesive theme of epithelial cell signaling and polarity regulation, with endocytosis linking signaling to polarity. An outlier term on subtelomeric heterochromatin formation is present but does not disrupt the main theme.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006348","count":4},{"id":"GO:0043652","count":4},{"id":"GO:0007173","count":4},{"id":"GO:0070830","count":4},{"id":"GO:0043547","count":4}]},{"hash":"471187072229834753","title":"RNA splicing and mRNA export","description":"Most terms cluster around RNA processing, splicing, alternative splicing via spliceosome, and mRNA export from the nucleus, indicating a shared function in nuclear RNA maturation and export. Immune-related terms appear less central to the core signal, so the primary theme is RNA splicing/export.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:1904628","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0001782","count":2},{"id":"GO:1904246","count":2}]},{"hash":"425043460629736661","title":"Membrane trafficking and mitochondrial dynamics","description":"GO terms point to vesicle trafficking and membrane remodeling (synaptic vesicle budding from presynaptic endocytic zone membrane, endosome organization, macropinocytosis) together with mitochondrial processes (mitophagy type 2, mitochondrial fusion) and related lipid tube assembly. This suggests the cluster groups proteins involved in coordinating endomembrane trafficking with mitochondrial maintenance; some terms like sensory perception of sound and apoptotic process may be less central noise.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0060988","count":2},{"id":"GO:0016185","count":2}]},{"hash":"1890288005522841085","title":"Membrane Transport and Signaling Regulation","description":"The top GO terms cluster around transport across the membrane and regulatory processes related to trafficking and signaling (plasma membrane to endosome transport, transmembrane transport, and negative regulation of related localization and signaling pathways such as TNF and HIF-1alpha). This suggests a membrane trafficking/regulatory module rather than a single enzymatic function, justifying a membrane transport and signaling regulation label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042916","count":1},{"id":"GO:0055085","count":1},{"id":"GO:1902306","count":1},{"id":"GO:0032088","count":1},{"id":"GO:0048227","count":1}]},{"hash":"1084300513469678930","title":"Calcium signaling and ion transport","description":"The top GO terms cluster around calcium signaling and ion transport (calcium release from the sarcoplasmic reticulum, calcium ion transmembrane transport, response to calcium) with related excitability terms (cardiac and neural action potentials). While a few terms are broader (skin development, caffeine response, T cell signaling), they can be tied to calcium-mediated signaling. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061577","count":2},{"id":"GO:0086048","count":2},{"id":"GO:0021633","count":2},{"id":"GO:0050856","count":2},{"id":"GO:0071805","count":2}]},{"hash":"639848399734653132","title":"Chromatin Assembly and Transcription Regulation","description":"The top GO terms cluster around chromatin-related processes: DNA replication-dependent chromatin assembly, establishment of protein localization to chromatin, and regulation of transcription by RNA polymerase II, with a few outliers likely due to annotation noise (translation, spermatid development). The core pattern ties to chromatin organization and transcription control, justifying this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0035023","count":1},{"id":"GO:0006335","count":1},{"id":"GO:2000973","count":1},{"id":"GO:0007286","count":1}]},{"hash":"141992639561761426","title":"Muscle and cardiac development with stem cell regulation","description":"The top GO terms cluster around skeletal muscle differentiation, cardiac muscle development and ventricle formation, and regulation of stem cell proliferation, with Wnt signaling linked to developmental regulation. A couple terms about transcription elongation fidelity and histone methylation seem incidental. Overall, the dominant theme is muscle/heart lineage specification and stem cell dynamics, supporting this label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:0060534","count":1},{"id":"GO:2000741","count":1},{"id":"GO:0001195","count":1},{"id":"GO:0010452","count":1}]},{"hash":"1939670676662849848","title":"Glycolysis and Carbohydrate Metabolism","description":"The cluster shows clear signals for glucose/fructose metabolism and glycolytic processes (glucose and fructose metabolic processes, glycolytic process, carbohydrate phosphorylation), suggesting core involvement in energy metabolism. The presence of several neuronal terms (startle response, sensory perception of sound, righting reflex, serotonin signaling, excitatory postsynaptic potential) appears to be annotation breadth rather than a unifying neural function, so the primary theme is metabolic processing rather than neural signaling.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006000","count":1},{"id":"GO:0006006","count":1},{"id":"GO:0006096","count":1},{"id":"GO:0046835","count":1},{"id":"GO:0001964","count":1}]},{"hash":"1599870990464622539","title":"Neural synaptic signaling and ion transport","description":"The cluster centers on neuronal communication at synapses and ion-channel\u2013mediated excitability. Terms such as excitatory postsynaptic potential, membrane depolarization, and sodium/potassium transmembrane transport point to active synaptic signaling and action potential generation. Additional GO terms\u2014glycinergic and serotonin receptor signaling\u2014reflect both inhibitory and modulatory neurotransmission in neural circuits. Phenotypes like startle response, sensory perception of sound, and righting reflex further support involvement of auditory/reflex neural pathways. Together, these terms suggest a cohesive theme of neural synaptic signaling and ion-channel\u2013driven neural excitability.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0051899","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0001964","count":4}]},{"hash":"1215313167482459578","title":"Nutrient and Ion Transmembrane Transporters","description":"Proteins are associated with multiple transmembrane transport GO terms across diverse substrates (nitrate, sialic acid, vitamins, hydroxyphenylacetate, antibiotics, and ions like Na+ and K+), and even a synaptic vesicle loading term, all pointing to membrane transport roles. The common thread is transport of small molecules and ions across membranes, rather than a single pathway, so a broad transporter label fits best.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015739","count":2}]},{"hash":"499684231286787191","title":"Small Molecule Biosynthesis","description":"This cluster's GO terms are dominated by biosynthetic processes for diverse small molecules\u2014porphyrinogen/heme precursors, sphinganine, kynurenic acid, various amino acids, and related metabolites\u2014suggesting a shared role in synthesizing small metabolites. A few outlier terms (Notch signaling, transcription) are less connected to core metabolism, but the overall pattern supports a biosynthesis/metabolism theme.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0007219","count":1},{"id":"GO:0055089","count":1},{"id":"GO:0046511","count":1}]},{"hash":"47452228672884878","title":"Keratinocyte differentiation via Wnt-Hippo signaling","description":"This cluster is dominated by keratinocyte differentiation (GO:0030216) and signaling pathways that regulate growth and differentiation, notably canonical Wnt signaling and Hippo signaling, with related transcriptional regulation and apoptosis terms\u2014supporting a theme of epidermal differentiation controlled by Wnt/Hippo pathways.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0050808","count":2}]},{"hash":"503115413291517776","title":"Lipid and Glycan Biosynthesis","description":"This cluster centers on biosynthetic processes for lipids and glycans, including phospholipid, glycolipid, and GPI-anchor biosynthesis, plus a mycothiol biosynthetic term, suggesting a shared function in membrane component synthesis. Some stress-response terms are present but the dominant theme is lipid/glycan biosynthesis pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":2},{"id":"GO:0033577","count":1},{"id":"GO:0008654","count":1},{"id":"GO:0009247","count":1},{"id":"GO:0009405","count":1}]},{"hash":"1485080621161240760","title":"Meiotic Recombination and Gamete Development","description":"This cluster centers on meiotic processes and germ cell development, including oocyte maturation, spermatid development, reciprocal meiotic recombination, DNA strand invasion, and heteroduplex formation, with telomere maintenance via recombination and related cell-cycle regulation. The shared theme is meiosis and germline genome maintenance across gamete formation, rather than general somatic processes.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001556","count":2},{"id":"GO:0007131","count":2},{"id":"GO:0009951","count":2},{"id":"GO:1990426","count":2},{"id":"GO:0007286","count":2}]},{"hash":"2190343501554639205","title":"Unknown","description":"The GO terms span diverse tissues and developmental processes (ear, heart, neurons, vasculature, skin, kidney) with no unifying function, so a coherent, specific label cannot be determined from the clustered terms.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0003165","count":2},{"id":"GO:0090176","count":2},{"id":"GO:1903142","count":2}]},{"hash":"1660161311929813818","title":"T cell signaling and antigen presentation","description":"The top GO terms are dominated by immune-related processes: T cell receptor signaling, antigen processing and presentation via MHC class I, and stimulatory C-type lectin receptor signaling, suggesting the proteins cluster around adaptive/innate immune signaling and antigen presentation. Some other terms touch on stress and metabolic processes, but the immune core is clear.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0006521","count":2},{"id":"GO:0002223","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0009651","count":2}]},{"hash":"270091317634518188","title":"DNA Replication and Transcription Regulation","description":"This cluster shows strong representation of DNA replication processes (mitotic DNA replication checkpoint signaling, leading strand elongation) and transcription initiation (RNA polymerase II preinitiation complex assembly), suggesting proteins tied to genome information flow. Other terms point to metabolism and protein homeostasis, which may reflect broader cellular roles or multifunctionality, but the core theme appears to be replication and transcription regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0033314","count":4},{"id":"GO:0046034","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0006272","count":4},{"id":"GO:1903715","count":4}]},{"hash":"526947446186666004","title":"Unknown","description":"The GO terms span diverse processes (cytoskeleton remodeling, neuron development, taste perception, nutrient and growth signaling, TORC1 regulation, chromatid cohesion, splicing, and chromatin modification), with no clear single theme linking them all.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0007064","count":2}]},{"hash":"2005921772561146761","title":"Neuronal Development and Actin Dynamics","description":"Top terms cluster around neuronal development (brain development, neuron projection development) and actin cytoskeleton remodeling (Arp2/3 complex-mediated actin nucleation). These together point to processes driving neuron growth and projection formation, supported by related signals like growth hormone and nutrient responses; other terms reflect broader cellular processes but do not override the strong neuronal-development and actin-remodeling theme. ","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007584","count":2},{"id":"GO:0034314","count":2}]},{"hash":"743183890492368549","title":"Ubiquitin-Proteasome and Autophagy Regulation","description":"Most of the terms emphasize ubiquitin-related protein turnover (ubiquitin-dependent degradation, sumoylation, free ubiquitin chains) and autophagy processes (autophagosome maturation), with some phosphorylation involvement. A minority of terms touch heat response or neural signaling, but the core connection across the cluster is protein quality control via ubiquitin pathways and autophagy.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":2},{"id":"GO:1904049","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0010286","count":2}]},{"hash":"721890105090983356","title":"Ribosome Biogenesis and rRNA Processing","description":"The strongest GO signals are maturation of 5.8S and LSU rRNA transcripts and RNA (guanine-N7)-methylation, which point to ribosome assembly and rRNA processing as the core function of this cluster. Other terms (ER\u2013Golgi transport, actin nucleation, growth responses) appear less central or auxiliary. Thus the label emphasizes the primary theme of ribosome biogenesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0007584","count":1}]},{"hash":"1584969602510330939","title":"Ribosome biogenesis and translational regulation","description":"This cluster centers on ribosome assembly and translation, with GO terms for ribosome biogenesis, translation, and translational fidelity (plus ancillary transcription-related terms and antibiotic response that may reflect broader gene expression coordination and stress linked to ribosomal activity). The core theme is ribosome function and its regulation.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0000455","count":1},{"id":"GO:0031564","count":1},{"id":"GO:1990145","count":1}]},{"hash":"1982988561488720035","title":"Oxidative and ER Stress Response with Protein Repair","description":"They cluster around oxidative and ER stress responses, redox homeostasis, and protein repair/quality control, with a note of prolyl hydroxylation and transcriptional regulation that may accompany stress signaling.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0030091","count":1},{"id":"GO:0046826","count":1},{"id":"GO:1903026","count":1}]},{"hash":"1411546951928973602","title":"Unknown","description":"The GO terms span developmental processes (hemocyte development, embryonic syncytial blastoderm, head involution) and diverse stress/immune or sensory-related terms (response to UV/cobalt, glucocorticoid, B cell homeostasis, sensory perception of sound, platelet formation) with no clear shared function. The absence of edges and lack of a dominant theme prevent a cohesive, specific label. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032025","count":1},{"id":"GO:0030220","count":1},{"id":"GO:0007516","count":1},{"id":"GO:0008258","count":1},{"id":"GO:0001782","count":1}]},{"hash":"1434493324751212107","title":"Ribosome biogenesis and translation","description":"The cluster shows GO terms for cytosolic translation, ribosomal large-subunit biogenesis and export, and mitochondrial translation termination, all pointing to ribosome assembly and the machinery of protein synthesis across compartments.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042273","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0070126","count":1}]},{"hash":"2259455386937202471","title":"DNA damage response and chromatin modification","description":"The cluster\u2019s core terms point to chromatin regulation (histone H4-K20 methylation, H4-K16 acetylation) and a ubiquitin-related modification (K6-linked ubiquitination), alongside a radiation- (X-ray)\u2013response signal. This suggests a cohesive theme around DNA damage response and chromatin remodeling, with a few unrelated terms present that dilute the signal. Overall, the chromatin modification and radiation response connection best explains the set.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085020","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0010165","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0030224","count":1}]},{"hash":"2167838376249940849","title":"GTPase-regulated vesicle trafficking","description":"Based on the top GO terms, the strongest signals point to positive regulation of GTPase activity and retrograde vesicle transport from Golgi to ER, suggesting a shared role in small GTPase\u2013driven vesicle trafficking within the secretory pathway. The other terms appear more heterogeneous (ion transport, arsenic response, chaperone activity, iron-sulfur assembly, chromosome segregation, phosphorylation), indicating additional functions but a plausible core linked to GTPase signaling and trafficking.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0099132","count":1},{"id":"GO:0099133","count":1},{"id":"GO:0046685","count":1},{"id":"GO:1990507","count":1}]},{"hash":"1523071460128121736","title":"Bacterial metabolism and cell division","description":"The GO terms point to bacterial metabolism and transport (nitrate, iron, copper, arsenate) plus diverse metabolic activities (cellulose catabolism, antibiotic biosynthesis) and cell-division/differentiation (FtsZ-dependent cytokinesis, sporulation). The common thread is a bacterial metabolic context linked to division, so \"Bacterial metabolism and cell division\" fits.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0030245","count":1},{"id":"GO:0034755","count":1},{"id":"GO:0033215","count":1}]},{"hash":"2220198525295523300","title":"Unknown","description":"The GO terms are highly diverse (calcium transport, development, transcription regulation, immune homeostasis, and cell cycle processes) with no single dominant function. With only four proteins and no edges, there\u2019s no coherent shared theme to define a specific biological role, so the cluster is best labeled Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0032926","count":1},{"id":"GO:0060244","count":1},{"id":"GO:0048098","count":1},{"id":"GO:0033262","count":1}]},{"hash":"634008523273661665","title":"RNA processing and translation regulation","description":"Based on GO terms such as alternative mRNA splicing via spliceosome, small-subunit processome assembly, mRNA stabilization, translation reinitiation, and IRES-dependent viral translation initiation, the proteins appear connected to RNA metabolism and control of translation. Some terms (e.g., ncRNA-mediated gene silencing and hypoxia response) are broader or incidental, but the dominant theme centers on post-transcriptional RNA processing and regulation of translation. ","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":3},{"id":"GO:0000380","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0048255","count":2}]},{"hash":"2212524682176202083","title":"Neuronal Migration and Vesicle Budding","description":"Dominant GO terms point to neuronal development, especially various forms of neuronal migration to the olfactory bulb and cortex, along with vesicle budding and secretory pathway/localization processes. This suggests a cluster focused on migrating neurons with vesicle trafficking/secretion. A few outlier terms may reflect background noise. Confidence: High.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070142","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0097212","count":2},{"id":"GO:0000042","count":2}]},{"hash":"993344965920870366","title":"Embryonic eye development","description":"The top GO terms are centered on eye formation and retina development (camera-type eye development, embryonic eye morphogenesis, retina development), indicating a cohesive role in ocular organogenesis; other terms touch broader developmental processes but do not outweigh the eye-specific signal.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0060528","count":2},{"id":"GO:0043010","count":2}]},{"hash":"698975121338267957","title":"Neural development and brain morphogenesis","description":"The top GO terms are dominated by neural differentiation and brain development (rhombomere 2 development, visceral motor neuron differentiation, forebrain morphogenesis, AV node fate), alongside transcriptional regulation, pointing to neural developmental programs. A few kidney-related terms are present but far less representative; thus the neural development theme best summarizes the cluster\u2019s shared function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:1904081","count":2},{"id":"GO:0045686","count":2},{"id":"GO:0072095","count":2},{"id":"GO:0021568","count":2}]},{"hash":"2128559628559331768","title":"Ear and Neural Development","description":"The dominant terms point to development of sensory structures (inner ear, sound perception) and neural/neural-supportive processes (Purkinje cell development, neuron adhesion, oligodendrocyte proliferation) along with tissue morphogenesis signals (planar polarity). Although a few terms are more tissue-specific (ureter, melanin), the overarching pattern is developmental programs in sensory and neural tissues.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0003165","count":4},{"id":"GO:0090176","count":4},{"id":"GO:1903142","count":4}]},{"hash":"358911051814543872","title":"Embryonic and Organ Morphogenesis","description":"This cluster is dominated by developmental and morphogenesis terms (spermathecum morphogenesis, maternal placenta development, trachea cartilage development, in utero embryonic development), suggesting a shared function in tissue formation across different organ systems. Secondary terms related to immune regulation and circadian rhythm are present but less representative of the core theme.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035211","count":3},{"id":"GO:0001893","count":3},{"id":"GO:0060534","count":3},{"id":"GO:0032765","count":3},{"id":"GO:0035902","count":3}]},{"hash":"882071980462329571","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0022417","count":3},{"id":"GO:0006458","count":3},{"id":"GO:0006986","count":3},{"id":"GO:0036494","count":3},{"id":"GO:0070301","count":3}]},{"hash":"461197446845079606","title":"Neural and Brain Development","description":"The top GO terms cluster around neural and sensory organ development, including brain and inner ear development, locomotory behavior, neuron differentiation, and glial differentiation regulation, suggesting a theme of neural/sensory system development. Some terms relate to other organs (kidney, heart), likely due to pleiotropy, but they are less represented. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007420","count":3},{"id":"GO:1904081","count":2}]},{"hash":"1843600197490364898","title":"Nucleosome assembly and chromatin organization","description":"The dominant GO terms point to chromatin-related processes: nucleosome assembly, heterochromatin organization, and localization to chromatin, with additional notes on regulation of nucleus size and histone methylation. This suggests the proteins are involved in maintaining chromatin structure and histone modification. A few terms about translation and rRNA methylation appear as minor, possibly incidental annotations. Overall, the cluster is best described by nucleosome assembly and chromatin organization.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0080182","count":3}]},{"hash":"1948136885503921992","title":"Neuronal Migration and Vesicle Trafficking","description":"This cluster\u2019s top GO terms cluster around neuronal development, especially interneuron/migration events in the cortex and olfactory bulb, alongside vesicle trafficking and secretory pathway processes (synaptic vesicle budding, Golgi localization, lysosomal organization). While a couple terms are less related (keratinization, drug response), the dominant theme is neuronal migration coupled with vesicle transport and organelle organization, suggesting a functionally coherent group centered on developing neurons and their secretory pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070142","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0097212","count":2},{"id":"GO:0000042","count":2}]},{"hash":"2170582186184562149","title":"RNA Pol II Transcription Initiation","description":"The top GO terms cluster around RNA polymerase II\u2013driven transcription initiation, preinitiation complex assembly, and general transcription regulation (DNA-templated transcription), suggesting the proteins function mainly in transcription initiation by RNA Pol II. A few peripheral terms (viral process, transport) are present but do not override the core signal.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1309968104670535671","title":"Glycan biosynthesis and cell wall formation","description":"This cluster centers on carbohydrate metabolism and cell wall biosynthesis/remodeling, highlighted by GDP-mannose and glycogen/glycan-related biosynthetic processes and cell wall\u2013associated activities, with some legacy or broad terms also present.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0009298","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0019877","count":1}]},{"hash":"3775565361242925","title":"Mitotic spindle and kinetochore assembly","description":"Most terms describe mitotic processes: mitotic spindle organization, attachment of spindle microtubules to kinetochores, metaphase chromosome alignment, and related kinetochore\u2013microtubule interactions. This suggests the cluster centers on proteins involved in spindle assembly and kinetochore function during cell division. A couple of terms about immunity appear as outliers, likely noise. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905561","count":1},{"id":"GO:0007052","count":1},{"id":"GO:0090268","count":1},{"id":"GO:0051315","count":1},{"id":"GO:0051310","count":1}]},{"hash":"2239330744412680467","title":"Unknown","description":"The GO terms span apoptosis, immune responses, chromatin organization, cytoskeletal assembly, calcium signaling, neuronal/grooming behavior, and differentiation, with only single-term annotations and no clear shared function. This heterogeneous mix provides no cohesive functional theme to label the cluster meaningfully.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":1},{"id":"GO:0016191","count":1},{"id":"GO:0030702","count":1},{"id":"GO:0002250","count":1},{"id":"GO:0045087","count":1}]},{"hash":"1326918609795220323","title":"Negative Regulation of Immune Signaling and MAPK Pathways","description":"The top GO terms cluster around suppression of signaling pathways, especially T cell receptor signaling and the ERK/MAPK cascade, along with related cytokine signaling (IL-6, IL-2) and growth hormone secretion. Additional terms on integrin-mediated adhesion and platelet formation hint at broader roles in cell\u2013cell interactions and hematopoietic contexts, but the dominant pattern is negative regulation of signaling, centered on MAPK activity. ","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":4},{"id":"GO:0070373","count":4},{"id":"GO:0000200","count":4},{"id":"GO:0030220","count":3},{"id":"GO:2000646","count":3}]},{"hash":"2213050110800644140","title":"Methionine and Betaine Metabolism","description":"The GO terms cluster around methionine salvage and betaine/choline metabolism (L-methionine salvage, S-methylmethionine cycle, betaine/choline catabolism) and intersect with homocysteine/methionine cycling, pointing to a shared role in one-carbon and methyl-donor metabolism, with pteridine-containing compound metabolism providing a related cofactor context.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071267","count":1},{"id":"GO:0050666","count":1},{"id":"GO:0042426","count":1},{"id":"GO:0042558","count":1},{"id":"GO:0033528","count":1}]},{"hash":"38158217373367985","title":"Unknown","description":"The GO terms span neural development (Bergmann glial differentiation, cerebellar cortex formation), metabolic signaling (insulin receptor signaling, glucose import), immune signaling (T cell receptor signaling), cell cycle/mitosis (kinetochore localization, CDK regulation), axon regeneration, and apoptosis, showing no single cohesive function for all proteins. Therefore, no clear cluster theme can be determined.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060020","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0034501","count":4},{"id":"GO:0021697","count":4}]},{"hash":"2131049492386970034","title":"Unknown","description":"The top GO terms are diverse, including DNA recombination, blood coagulation, salivary gland morphogenesis, cell envelope organization, and cross-linking, with no single common function linking all four proteins. There are no interactions among them (Edges: 0; Max Degree: 0), suggesting the proteins do not form a coherent functional cluster. Thus the cluster is best labeled Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0072378","count":1},{"id":"GO:0060445","count":1},{"id":"GO:0060662","count":1},{"id":"GO:0043163","count":1}]},{"hash":"985545173618092073","title":"Microtubule Assembly and Protein Quality Control","description":"The four proteins are tied to tubulin complex assembly and cortical microtubule organization, and also to protein folding and chaperone-mediated complex assembly, with cytoplasm protein quality control by the ubiquitin-proteasome system. This points to a cohesive theme of microtubule dynamics supported by proteostasis machinery (with one transcription elongation term that appears less directly connected). ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007021","count":2},{"id":"GO:0071629","count":2},{"id":"GO:0043622","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0032968","count":2}]},{"hash":"2239959695126490093","title":"Amino acid transport across plasma membrane","description":"The GO terms point to import across the plasma membrane for several amino acids and related substrates (arginine, ornithine, methionine, D-alanine, carnitine), suggesting a shared function as membrane transporters for amino acids and related metabolites. Some macrophage activation terms appear, likely reflecting annotation noise or pleiotropy, but the dominant pattern supports a transport role.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042116","count":1},{"id":"GO:0043030","count":1},{"id":"GO:0097638","count":1},{"id":"GO:0006884","count":1},{"id":"GO:0042941","count":1}]},{"hash":"1481615705691262240","title":"Negative Regulation of Immune Signaling and Ubiquitination","description":"The terms converge on dampening of immune signaling (NF-kB, IL-2/IL-1\u03b2 production, TLR5 signaling) and mucosal/adaptive immune responses, coupled with deubiquitination of K48-linked chains, which fits mechanisms that suppress immune activation. The ER-Golgi transport term may reflect secretory processes linked to immune effector function. Overall, this cluster centers on downregulation of inflammatory immune signaling through ubiquitination control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0002385","count":2},{"id":"GO:1901315","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0032703","count":2}]},{"hash":"823218406145473127","title":"Neural calcium signaling and synaptic regulation","description":"The top GO terms cluster around calcium-related signaling in neural contexts, including detection of calcium ions, regulation of synaptic vesicle exocytosis, and calcium-modulating pathways, pointing to calcium-dependent neuronal communication. Additional terms like long-term memory and Schwann cell development reinforce a nervous system context, suggesting roles in neural signaling and glial-associated development. The label emphasizes calcium-dependent neural signaling and synaptic regulation as the core theme of this cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1905205","count":1},{"id":"GO:0007616","count":1},{"id":"GO:2000300","count":1},{"id":"GO:0007223","count":1},{"id":"GO:0005513","count":1}]},{"hash":"1638286092920807079","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0080180","count":2},{"id":"GO:0032775","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0009452","count":2}]},{"hash":"646164113366197707","title":"Post-transcriptional RNA regulation","description":"GO terms cluster around RNA metabolism and translation control, including spliceosome-mediated alternative splicing, small-subunit processome assembly, mRNA stabilization, regulatory ncRNA-mediated gene silencing, and translation initiation/reinitiation (including IRES and viral contexts). This suggests a shared role in post-transcriptional gene regulation, spanning RNA processing to translation and ribosome biogenesis.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0048255","count":4}]},{"hash":"1163637359587641124","title":"Calcium signaling in muscle and immune cells","description":"The cluster features GO terms tied to calcium ion transport, voltage-gated channels, depolarization and cardiac action potential, SR calcium release, and regulation of T cell signaling, suggesting a common theme of calcium handling that links excitable tissue activity (heart/muscle) with immune cell signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":3},{"id":"GO:0061577","count":2},{"id":"GO:0086048","count":2},{"id":"GO:0021633","count":2},{"id":"GO:0050856","count":2}]},{"hash":"775365354409510444","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071039","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0071035","count":1},{"id":"GO:1901917","count":1},{"id":"GO:0034476","count":1}]},{"hash":"1756878019323819997","title":"Neuronal Migration and Vesicle Trafficking","description":"This cluster centers on neural development and vesicle trafficking. Several GO terms describe neuronal migration (tangential migration to the olfactory bulb; cerebral cortex radially oriented cell migration; embryonic olfactory bulb interneuron precursor migration) and others relate to vesicle secretion and trafficking (synaptic vesicle budding; positive regulation of the regulated secretory pathway; Golgi localization; lysosomal membrane organization). The combination suggests a theme of neurons migrating while managing secretory pathways during development. The signal is modest, with many terms singularly represented, so I assign Medium confidence.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070142","count":1},{"id":"GO:0022028","count":1},{"id":"GO:0021799","count":1},{"id":"GO:0097212","count":1},{"id":"GO:0000042","count":1}]},{"hash":"1137973622664870460","title":"Eye development and retinal neuron differentiation","description":"The cluster is dominated by GO terms tied to visual system development and retinal/eye biology, including visual perception, lens development, retinal bipolar neuron differentiation, and neural crest formation. These collectively point to ocular and retinal neural differentiation as the core theme. A couple of other terms (translation, ribosomal assembly) are generic housekeeping signals present in small gene sets but do not redefine the cluster\u2019s primary function. Overall, the label reflects the strongest, most coherent functional signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060040","count":2},{"id":"GO:0014029","count":2},{"id":"GO:0006412","count":1}]},{"hash":"363572737800576911","title":"Neuroendocrine Brain Development","description":"The terms converge on brain development (cerebral cortex regionalization, neuron migration) and neuroendocrine regulation (corticosterone and growth hormone secretion), suggesting these proteins function in coordinated brain development with hormonal signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021796","count":2},{"id":"GO:2000852","count":2},{"id":"GO:0090210","count":2},{"id":"GO:0048496","count":2},{"id":"GO:0061743","count":2}]},{"hash":"1625593791576746199","title":"Angiogenesis and vascular development","description":"The top GO terms point to blood vessel formation and endothelial cell migration (angiogenesis and related processes). Additional terms emphasize organ morphogenesis (lung, heart valve) and other developmental processes, suggesting a cluster of proteins involved in vascular development and cardiovascular morphogenesis. The pattern is strongest around angiogenesis, with supporting developmental context. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0060425","count":2}]},{"hash":"1369354930652414330","title":"Unknown","description":"The GO terms are heterogeneous, spanning metabolism (glucosylceramide, glycine betaine biosynthesis), development (neural crest, ureter maturation), endothelial proliferation, reflexes, and nutrient/oxygen responses, with some terms obsolete. There is no clear single function connecting all proteins, so a cohesive label isn\u2019t apparent.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006537","count":3},{"id":"GO:0007584","count":2},{"id":"GO:0001936","count":2},{"id":"GO:0006678","count":2},{"id":"GO:0060013","count":2}]},{"hash":"1803435054065339937","title":"Vacuolar transport and ion homeostasis","description":"Several top GO terms cluster around vacuole-related processes (vacuolar acidification, vacuole organization, protein targeting to vacuole) and membrane transport involving ions (sodium, protons) and proton motive force. This points to a group of proteins involved in vacuolar trafficking and maintaining ion balance across membranes. A few terms about aromatic amino acid catabolism are peripheral, but the dominant theme is vacuolar transport and ion homeostasis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007035","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0007033","count":1}]},{"hash":"31617873407124470","title":"Fatty acid and lipid biosynthesis","description":"The top GO terms are dominated by lipid- and fatty-acid-related processes (fatty acid biosynthetic process, very long-chain fatty acid metabolism, lipoteichoic acid biosynthesis, menaquinone biosynthetic process, carnitine and propionate metabolism), suggesting a cohesive theme around lipid and fatty acid metabolism, especially in bacteria. This label captures the central function represented by the cluster and is specific enough to distinguish it from other metabolic groups.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019427","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0008206","count":1},{"id":"GO:0009437","count":1}]},{"hash":"1445702789494291854","title":"Lipid Metabolism and Stress Signaling","description":"The GO terms include fatty acid biosynthesis, prostaglandin and retinol metabolism, which point to lipid metabolism, and several stress/ signaling related terms (response to LPS, nitrosative and osmotic stress, extracellular negative regulation of signal transduction, blood pressure regulation). This suggests a cluster tied to lipid-derived signaling and broader stress-response processes rather than a single narrow function, though the small size and mixed terms warrant a cautious, broad label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051160","count":1},{"id":"GO:0003016","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0032496","count":1},{"id":"GO:0045777","count":1}]},{"hash":"2181335426666027840","title":"Neural development and purine salvage metabolism","description":"This cluster is enriched for nervous system development terms such as cerebral cortex neuron differentiation, striatum development, and dendrite morphogenesis, with associated neural behavior terms (locomotory behavior). It also includes nucleotide metabolism and salvage terms (AMP salvage, GMP salvage, PRPP biosynthetic process, purine nucleobase metabolic process), suggesting a link between neural development processes and nucleotide salvage pathways. The presence of a few mixed terms like cytolysis is minor and does not override the core theme, so the label reflects the dominant neural development and purine salvage signals.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019835","count":1},{"id":"GO:0021895","count":1},{"id":"GO:0007626","count":1},{"id":"GO:0045982","count":1},{"id":"GO:0044209","count":1}]},{"hash":"2287379312886232846","title":"DNA recombination and proviral integration","description":"The top GO terms revolve around DNA recombination, DNA integration, and RNA-templated DNA biosynthesis, with a theme of genome modification and proviral latency. Though a few terms suggest host-symbiont interactions, the core signal centers on genetic material manipulation and proviral integration processes, justifying a label focused on recombination and integration.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0046944","count":1},{"id":"GO:0000722","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0072670","count":1}]},{"hash":"211430646766568055","title":"Diverse Metabolic Biosynthesis","description":"The GO terms point to multiple, distinct biosynthetic and catabolic processes (antibiotics, chlorophyll, biotin, porphyrin/heme intermediates, GABA, putrescine, amino acid derivatives) with no single cohesive pathway. This suggests the proteins are involved in general metabolism rather than a specific function, so a broad label for diverse metabolic biosynthesis fits best.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0042450","count":1},{"id":"GO:0010121","count":1},{"id":"GO:0009450","count":1}]},{"hash":"150435716404265182","title":"Bacterial lipid and quinone biosynthesis","description":"This cluster\u2019s GO terms cluster around lipid metabolism and membrane-associated biosynthesis, including fatty acid biosynthesis, very long-chain fatty acid metabolism, bile acid-related metabolism, lipoteichoic acid biosynthesis, and menaquinone biosynthesis. These together suggest a membrane lipid/quinone biosynthetic theme, typical of Gram-positive bacteria. A couple terms (venricular cardiac muscle morphogenesis, obsolete acetyl-CoA pathway) appear as outliers or annotation noise, so the label is a best-fit reflection of the main pattern.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008206","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0019427","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0006633","count":1}]},{"hash":"699979599466820171","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033314","count":1},{"id":"GO:1904357","count":1},{"id":"GO:0000736","count":1},{"id":"GO:0031297","count":1},{"id":"GO:0006296","count":1}]},{"hash":"737112250933661855","title":"RNA Processing and Silencing Machinery","description":"This cluster centers on RNA metabolism, with terms for transcription termination, polyadenylation, mRNA splicing, tRNA/splicing, and ncRNA-mediated gene silencing, plus RISC complex assembly. These collectively point to RNA processing and post-transcriptional regulation. A cerebellar cortex development term appears unrelated noise in this small cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006363","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0098789","count":1}]},{"hash":"72827847480939172","title":"Unknown","description":"The GO terms shown are highly diverse and do not point to a single cohesive function for the cluster. They span visual perception, immune/coagulation processes, cell adhesion, chlorophyll biosynthesis, metallopeptidase regulation, development, and extracellular matrix metabolism, suggesting noise or a mixed set rather than a unified biological role. Therefore there is no clear theme to assign a specific label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050908","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0006956","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0034113","count":1}]},{"hash":"1336715890268458562","title":"Vesicle trafficking and calcium-dependent signaling","description":"The cluster features GO terms centered on vesicle exocytosis and fusion, intracellular transport, calcium response, and related lipid metabolism (phosphatidylcholine and phosphatidylinositol). These collectively indicate membrane trafficking and calcium-driven signaling processes. The heart development and blood vessel remodeling terms may reflect tissue contexts for these pathways rather than a distinct cluster function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0007507","count":2},{"id":"GO:2000300","count":1},{"id":"GO:0031340","count":1},{"id":"GO:0060313","count":1}]},{"hash":"1961220530790495262","title":"Multicellular Development and Differentiation","description":"The top GO terms are dominated by developmental and differentiation processes across tissues (neuron projection development, lens fiber cell differentiation, skeletal system development, and multicellular organism development), suggesting a theme of organismal development. Additional terms for vesicle trafficking and actin nucleation point to cellular morphogenesis supporting development. Although connectivity is limited, the GO pattern supports a developmental/differentiation role for this cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0090114","count":2}]},{"hash":"289739457534723175","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000467","count":3},{"id":"GO:0000378","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0071894","count":3}]},{"hash":"775816259773811376","title":"Vision and Light Perception","description":"Dominant terms are visual perception and absorption of visible light, pointing to photoreceptive or light-sensing functions. Other terms like heart development and cell proliferation are less central and may reflect multifunctionality or annotation noise. Overall, the strongest signal is vision-related, justifying a label focused on light sensing and perception.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0043950","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0003093","count":1}]},{"hash":"2072225522024704352","title":"Cerebellar development and Bergmann glia differentiation","description":"This cluster is driven by cerebellar-specific neural development terms, especially Bergmann glial cell differentiation and cerebellar cortex formation, along with related axon regeneration and apoptotic processes. While a few terms touch on insulin signaling, T cell signaling, and lung morphogenesis, the dominant theme points to cerebellar development and glial differentiation, suggesting these proteins function together in cerebellar neural maturation and connectivity.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060020","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0021697","count":3},{"id":"GO:2001275","count":3}]},{"hash":"2099770691581919787","title":"Translation Machinery and Translational Stress Response","description":"This cluster is dominated by GO terms for translation (mitochondrial, cytoplasmic, and general translation) and responses to translation inhibitors (cycloheximide) and antibiotics, suggesting proteins linked to protein synthesis and the cellular stress responses that accompany translation perturbation. While a couple of terms are less directly related (e.g., meiotic chromosome alignment), the central theme is translation machinery and how cells respond to translational stress and associated signaling, justifying this label.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":1},{"id":"GO:0002181","count":1},{"id":"GO:1990090","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0046898","count":1}]},{"hash":"615613334079234694","title":"Nucleotide biosynthesis and salvage","description":"This cluster is dominated by GO terms describing nucleotide metabolism and phosphorylation, including AMP salvage, ADP/CDP biosynthesis, nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, and NAD+ biosynthesis. While there are a couple of terms mentioning brain and liver development, these likely reflect tissue-specific expression rather than core function. The overall theme is coherent around synthesis, interconversion, and salvage of nucleotides and related cofactors.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0046041","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0006172","count":3}]},{"hash":"1692891507042137014","title":"Neuromuscular junction clustering and signaling regulation","description":"The top GO term points to skeletal muscle acetylcholine-gated channel clustering, strongly suggesting NMJ-related receptor organization. Other terms indicate broader signaling regulation (GPCR signaling, Rho) and cytoskeletal dynamics (actin assembly/depolymerization), implying a cohesive theme around receptor localization at the NMJ coupled with signaling and cytoskeletal remodeling. While some terms are less connected, the dominant NMJ clustering signal plus associated signaling/cytoskeletal processes supports this broader functional label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071340","count":2},{"id":"GO:0008277","count":2},{"id":"GO:0032233","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0034242","count":1}]},{"hash":"1228472661547273594","title":"Notch-driven cell differentiation","description":"The Top Terms include a clear emphasis on Notch signaling and multiple entries about differentiation across various tissues (skeletal muscle, hair cycle, inner ear, pancreatic cells, etc.), highlighting a common theme of Notch-mediated regulation of cell fate and differentiation. This makes \"Notch-driven cell differentiation\" a concise, representative label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0042634","count":3},{"id":"GO:2001016","count":3},{"id":"GO:2000981","count":3}]},{"hash":"1141231710378220461","title":"Translation initiation and mRNA binding regulation","description":"This cluster centers on GO terms related to translation initiation (formation of cytoplasmic translation initiation complex, eIF3 complex assembly) and mRNA binding regulation (positive regulation of mRNA binding, translation reinitiation), with a few transcription-related terms that may reflect gene expression control at the nuclear periphery. The dominant theme appears to be translation initiation and mRNA regulation, supporting a coherent functional theme despite some outliers.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0001732","count":1},{"id":"GO:0034613","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0070196","count":1}]},{"hash":"1732245206466015186","title":"Unknown","description":"The terms span metabolism, bone biology, neural/synaptic functions, immune responses, and host-microbe interactions with no clear overarching process or linkage, and there are no edges connecting the proteins, so a coherent, specific label cannot be determined.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":1},{"id":"GO:0030282","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0035455","count":1},{"id":"GO:0050884","count":1}]},{"hash":"2116731446756935568","title":"Membrane trafficking and organelle organization","description":"This cluster is driven by GO terms related to vesicle budding, Golgi localization, and lysosomal membrane organization, suggesting a shared role in intracellular membrane trafficking and organelle maintenance; other terms are more diverse but do not override this core theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070142","count":3},{"id":"GO:0034379","count":3},{"id":"GO:0007124","count":3},{"id":"GO:2000828","count":3},{"id":"GO:2000171","count":3}]},{"hash":"985034378408957571","title":"Neural cell fate specification and transcriptional regulation","description":"This cluster centers on neural development, with multiple terms for differentiation of neural lineages (cerebral cortex interneurons, spinal cord motor neurons and oligodendrocytes, subpallium neurons) and a shared link to transcriptional regulation (RNA polymerase II activity and its negative regulation). Although a few developmental terms in other organs appear, the dominant theme is neurodevelopment coupled with transcription control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0021892","count":2},{"id":"GO:0021530","count":2},{"id":"GO:0021520","count":2}]},{"hash":"2014236352888642705","title":"Post-transcriptional RNA processing and translation control","description":"The top GO terms cluster around RNA processing, splicing, mRNA stabilization, and translation reinitiation, indicating a shared role in post-transcriptional regulation of gene expression. Although some mitosis-related terms appear, the dominant signal is RNA-centric, suggesting functions in RNA maturation and control of translation in proliferative/developmental contexts.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0090266","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0006396","count":1}]},{"hash":"1551721193121418716","title":"Eye Development and Morphogenesis","description":"The top GO terms cluster around embryonic and ocular development, including embryonic eye morphogenesis and camera-type eye development, along with pattern formation and broader morphogenesis terms. Neural development terms also appear (dopaminergic neuron differentiation, hypothalamus cell migration), supporting a developmental program with an eye-focused theme. The absence of edges in the cluster data means the link is inferential rather than demonstrated, so the label is a best-fit rather than definitive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0071542","count":2}]},{"hash":"660987493888691175","title":"Neuronal development and receptor internalization","description":"The dominant neuronal-related GO terms include retina development, neuroblast differentiation, and neuron cell-cell adhesion, along with receptor internalization, suggesting a focus on neuronal development and membrane receptor trafficking. Some terms (e.g., lipid metabolism or plant hormone signaling) appear ancillary or cross-species artifacts, but the cluster\u2019s core signals are neuronal in nature.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":2},{"id":"GO:2000331","count":1},{"id":"GO:0060041","count":1},{"id":"GO:0014016","count":1},{"id":"GO:0009740","count":1}]},{"hash":"107410065273593382","title":"Diverse catabolic metabolism","description":"The top GO terms are dominated by catabolic and metabolic processes (leucine and isoleucine catabolism, 2-oxoglutarate metabolism, propylene and camphor catabolism, lipoate and thiamine-related metabolism), suggesting proteins involved in energy-yielding degradation pathways. A couple of outliers (gastrulation, regulation of membrane potential) are present but do not override the overall metabolic theme. This supports labeling as a cluster of diverse catabolic/metabolic functions. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007369","count":1},{"id":"GO:0006552","count":1},{"id":"GO:0006103","count":1},{"id":"GO:0042208","count":1},{"id":"GO:0036245","count":1}]},{"hash":"506527835008998600","title":"Mesenchymal and Cartilage Differentiation","description":"This cluster's GO terms converge on differentiation into connective/skeletal lineages, including chondrocyte differentiation, mesenchymal stem cell differentiation, tracheal cartilage development, and endocardial/skeletal muscle differentiation. While there are some transcription-related terms, the dominant theme is lineage commitment toward mesenchymal-derived tissues and cartilage, supporting the chosen label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032332","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060956","count":2},{"id":"GO:0002281","count":1},{"id":"GO:0035914","count":1}]},{"hash":"1730946314430991556","title":"Vertebrate embryonic organogenesis","description":"The top GO terms cluster around embryonic development across multiple vertebrate organs, including palate, forebrain, hindbrain (rhombomere 2), heart, and kidney, suggesting a general role in organogenesis and neural differentiation rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:1904081","count":2},{"id":"GO:0045686","count":2},{"id":"GO:0072095","count":2},{"id":"GO:0021568","count":2}]},{"hash":"2229933900216664178","title":"Inner ear and neural development","description":"The top GO terms cluster around auditory system development, sensory perception of sound, inner ear development, and neural cell interactions, with microtubule organization linked to hair cell planar polarity, pointing to roles in auditory/neuronal tissue formation and connectivity. Some outliers (ureter maturation, melanin biosynthesis) are present but less representative.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0003165","count":2},{"id":"GO:0090176","count":2},{"id":"GO:1903142","count":2}]},{"hash":"1576344054705672456","title":"Beta-lactam antibiotic catabolism and response","description":"This cluster is dominated by GO terms tied to beta-lactam antibiotic catabolic process, regulation of beta-lactamase activity, and general response to antibiotics, suggesting proteins involved in processing or responding to beta-lactam antibiotics. Other metabolic terms (nylon catabolic process, various lipid/amino-acid metabolism) are less central, so the core theme appears to be antibiotic metabolism and resistance-related regulation.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030655","count":2},{"id":"GO:0019876","count":2},{"id":"GO:0033252","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0019427","count":1}]},{"hash":"2138819720412331521","title":"Telomere maintenance and replication fork dynamics","description":"The GO terms cluster around telomere maintenance, telomerase regulation, and replication fork processes (progression and reversal) along with DNA replication-related activities, suggesting a shared role in genome stability at telomeres and during replication.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903469","count":1},{"id":"GO:0000002","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0044806","count":1},{"id":"GO:0032211","count":1}]},{"hash":"623488552115267483","title":"Unknown","description":"The top GO terms cover highly diverse cellular roles\u2014from brain development and acrosome reaction to organelle import, vesicle formation, transcription initiation, and nucleotide biosynthesis\u2014without a clear common function linking the three proteins. With no interactions and heterogeneous annotations, there isn\u2019t a cohesive theme to label the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0007340","count":2},{"id":"GO:0033314","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0045899","count":1}]},{"hash":"909750743002475550","title":"Neural development and neuroimmune signaling","description":"This cluster centers on nervous system development and axon guidance, with terms like neuron projection development, fasciculation of sensory neuron axon, and nervous system development. The presence of Fc receptor signaling and mast cell cytokine production adds an immune signaling dimension, suggesting potential neuroimmune interactions in this protein set. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0038093","count":3},{"id":"GO:0048672","count":3},{"id":"GO:0032762","count":3}]},{"hash":"1521369418718449170","title":"Nervous system development and axonogenesis","description":"The terms cluster around nervous system development, axon growth, and neuron adhesion/guidance (peripheral nervous system development, fasciculation of sensory neuron axons, and positive regulation of axonogenesis), with supporting signaling involvement. This suggests a cohesive theme of neuronal development and axon pathfinding, despite a few additional signaling terms.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":1},{"id":"GO:0007158","count":1},{"id":"GO:0042517","count":1},{"id":"GO:0007422","count":1},{"id":"GO:0050772","count":1}]},{"hash":"1824810489231545787","title":"Vesicle trafficking and lipid metabolism","description":"The cluster centers on vesicle movement and exocytosis (regulation of synaptic vesicle exocytosis; positive regulation of vesicle fusion), intracellular transport and autophagosome-related substrate localization, with supporting lipid metabolism (phosphatidylcholine and phosphatidylinositol) and calcium-responsive signaling, pointing to membrane trafficking and vesicle dynamics with autophagy links.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":2},{"id":"GO:0031340","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0046470","count":2},{"id":"GO:0061753","count":2}]},{"hash":"1821869903281506261","title":"Unknown","description":"The terms are highly diverse (apoptotic process, mRNA processing, organ morphogenesis, cell differentiation, chromosome separation, endosome transport, radiation response) with no single dominant function linking the proteins, so a cohesive, specific label isn\u2019t apparent.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0060425","count":3},{"id":"GO:0051304","count":3},{"id":"GO:0090314","count":3}]},{"hash":"845276686103517261","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":2},{"id":"GO:0061146","count":2},{"id":"GO:0007605","count":1},{"id":"GO:0048839","count":1},{"id":"GO:0003165","count":1}]},{"hash":"1717427563171861782","title":"Unknown","description":"The terms cover metabolism, skeletal and muscular development, neural signaling, interferon responses, vesicle trafficking, and host\u2013symbiont interactions, with no evident common pathway linking all members. This lack of cohesive function makes a specific cluster label inappropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":1},{"id":"GO:0030282","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0035455","count":1},{"id":"GO:0050884","count":1}]},{"hash":"2045286285313166400","title":"Ubiquitin-mediated protein regulation","description":"The cluster is dominated by terms related to ubiquitination and ubiquitin-dependent control of protein fate, including K63-linked ubiquitination, the N-end rule pathway, and histone ubiquitination, as well as related processes like peroxisomal protein import that relies on ubiquitin cycling. Additional terms touching on apoptosis, meiotic recombination, embryonic development, and DNA repair can be understood as downstream outcomes regulated by ubiquitin signaling. Overall, the common theme is ubiquitin-dependent regulation of protein modification and turnover that influences cell fate and genome maintenance.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0010845","count":3},{"id":"GO:0016558","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0071596","count":3}]},{"hash":"366172660611843561","title":"Nuclear gene expression and ribosome biogenesis","description":"The terms cluster around nuclear processes that govern gene expression and protein synthesis: transcription regulation, RNA processing (splicing), ribosome biogenesis and export, and translation, with supporting signals from cell cycle control and some developmental processes (retina/optic nerve). This suggests a cohesive theme of nucleus-centered gene expression and ribosome assembly rather than a single, narrow function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000398","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0035167","count":1}]},{"hash":"659152059606975838","title":"Unknown","description":"The GO terms are diverse, spanning steroid hormone receptor assembly, prostate development, male differentiation, interferon response, NK T cell differentiation, antigen processing via MHC Ib, and vesicle/secretory transport. With no edges and only single-term associations across these categories, there is no coherent shared function linking the proteins. Therefore, Unknown with None confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006463","count":1},{"id":"GO:0030850","count":1},{"id":"GO:0046661","count":1},{"id":"GO:0071357","count":1},{"id":"GO:0051138","count":1}]},{"hash":"1954197494830729648","title":"Cardiovascular GPCR Signaling","description":"The majority of top GO terms describe regulation of blood pressure, heart rate, vasoconstriction, and signaling pathways mediated by GPCRs (dopamine, opioid, renin-angiotensin, adrenaline). This suggests a cluster centered on GPCR-driven cardiovascular regulation. Some items like heat generation or light absorption appear incidental but do not undermine the main theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003093","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0031649","count":3},{"id":"GO:0016038","count":3},{"id":"GO:1900453","count":3}]},{"hash":"2146493878642266967","title":"Autonomic Cardiovascular GPCR Signaling","description":"These proteins show GO terms centered on cardiovascular regulation (blood pressure, vasoconstriction, heart rate, renin-angiotensin) and GPCR-mediated signaling (dopamine, epinephrine/norepinephrine), suggesting a shared role in autonomic control of cardiovascular function via GPCR pathways. Some terms (light absorption, heat generation) appear as outliers or noise, but the dominant theme is cardiovascular autonomic signaling. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003093","count":1},{"id":"GO:0045907","count":1},{"id":"GO:0031649","count":1},{"id":"GO:0016038","count":1},{"id":"GO:1900453","count":1}]},{"hash":"1618780018519660299","title":"Golgi\u2013endosome vesicle trafficking","description":"This cluster shows multiple GO terms tied to Golgi organization, Golgi ribbon formation, Golgi-to-vacuole transport, endosome organization, vesicle docking, and protein localization to the plasma membrane, all indicating a shared role in vesicle trafficking between Golgi, endosomes, and membranes. The presence of Cvt pathway targeting and membrane trafficking terms further supports this cohesive function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":1},{"id":"GO:1904050","count":1},{"id":"GO:0090161","count":1},{"id":"GO:0048278","count":1},{"id":"GO:1903078","count":1}]}]