[{"hash":"1167476691110887542","title":"DNA Replication and Transcription Regulation","description":"Most terms cluster around nuclear DNA processes: DNA-templated transcription, DNA replication, telomere maintenance, and DNA recombination, which together suggest a group focused on genome maintenance and gene expression control. There are also indications of transcriptional regulation and signaling (NF-kappaB, corticosterone response), supporting a coherent theme of DNA-centered regulation and stress-responsive transcription. A few terms (karyogamy, substantia nigra development) are less directly related, likely reflecting broader multifunctionality or cross-species annotations. ","confidence":"High","size":29,"edges":22,"triangles":16,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0032508","count":2},{"id":"GO:0000723","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006469","count":2}]},{"hash":"2117545989074349228","title":"APC/C-Mediated Proteolysis in Mitosis","description":"This cluster is dominated by ubiquitin-dependent degradation terms, notably APC/C-dependent catabolic process and mitotic cell cycle, plus K11-linked ubiquitination, suggesting a cohesive theme of proteolysis regulating mitosis. Other terms (ERAD, ER-to-Golgi transport, histone methylation) are peripheral but do not override the core signal of targeted proteolysis during cell division.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0031145","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0071276","count":4}]},{"hash":"2259060713586495236","title":"Innate antiviral immune signaling","description":"These proteins show a strong emphasis on innate immune defense, including cellular response to dsRNA, interferon-beta production, and defenses against virus and bacteria, indicating a cohesive antiviral/innate immune signaling theme. Some terms for DNA repair and apoptosis appear but are likely downstream effects rather than core functions of the cluster.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:1903351","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0043330","count":3},{"id":"GO:0045359","count":3}]},{"hash":"229660274795604626","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":112,"triangles":95,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:1903883","count":5},{"id":"GO:0001519","count":5},{"id":"GO:2000637","count":5},{"id":"GO:0018032","count":5},{"id":"GO:1903265","count":5}]},{"hash":"428210745358559745","title":"Ubiquitin-mediated protein degradation","description":"The top GO terms center on ubiquitination and downstream proteolysis (autoubiquitination; ubiquitin-dependent protein catabolic process; K6-linked ubiquitination), which strongly suggests a cluster of proteins involved in tagging substrates for degradation. Additional terms like histone catabolic process and regulation of apoptotic processes align with ubiquitin-proteasome\u2013driven turnover and decision pathways. Some terms appear less directly related (viral material transport regulation, specific signaling), but the dominant theme is ubiquitin tagging and protein degradation. Overall, this cluster likely represents components of ubiquitin-mediated protein turnover.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:0042787","count":7},{"id":"GO:0085020","count":7},{"id":"GO:0070512","count":6},{"id":"GO:0036205","count":6}]},{"hash":"1319354223911834640","title":"Dopaminergic Neuron Development","description":"The cluster's top terms cluster around dopamine biosynthesis/metabolism and neuron projection extension, pointing to functions in dopaminergic neuron development. While immune-related terms are present, the strongest signal centers on dopamine production and neuronal extension, justifying a dopaminergic neuron development label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0035563","count":4},{"id":"GO:0032496","count":4},{"id":"GO:1990138","count":4},{"id":"GO:0042416","count":3}]},{"hash":"1113451393145695424","title":"Developmental Organogenesis & Neural Wiring","description":"This cluster centers on developmental processes such as thyroid gland development and digestive tract morphogenesis, along with neural connectivity events like commissural axon guidance and synapse assembly, and includes cell adhesion as a common theme\u2014together suggesting roles in organogenesis and neural wiring during development.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":2},{"id":"GO:0036523","count":2},{"id":"GO:1902769","count":2},{"id":"GO:0052014","count":2},{"id":"GO:0007155","count":2}]},{"hash":"2082685345621233452","title":"Unknown","description":"Top GO terms show a highly heterogeneous mix: cobalt ion transport; mRNA processing and non-stop decay; oxidative-reduction (obsolete); sensory perception of pain (mechanical and chemical detection); response to toxic substances; multicellular development; and DNA replication. There is no single shared function spanning these terms, and the cluster has no internal edges, suggesting the proteins do not form a cohesive functional group. Therefore, I cannot assign a meaningful, specific label beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006824","count":3},{"id":"GO:0006397","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0050966","count":2}]},{"hash":"651876302610392967","title":"TLR-mediated antiviral and inflammatory response","description":"The top terms cluster around Toll-like receptor signaling (TLR3/8/10), dsRNA sensing, and downstream interferon production, plus the inflammatory response, indicating a cohesive theme of innate immune sensing and antiviral/inflammatory signaling. Some terms (zygotic axis specification, floral meristem growth) are likely noise or broad annotations, but the dominant signal supports a TLR-driven immune response cluster.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":12},{"id":"GO:0002322","count":12},{"id":"GO:0045078","count":12},{"id":"GO:0010080","count":12},{"id":"GO:0034166","count":12}]},{"hash":"1481868342227172374","title":"Innate Immune Signaling and Interferon Response","description":"This cluster is driven by innate immune terms: defense against Gram-positive bacteria, overall innate immune response, Toll signaling, response to exogenous dsRNA, and positive regulation of interferon-beta production. These repeatedly point to antiviral/antibacterial innate signaling and interferon cytokine regulation as the core theme. Some unrelated terms (axonogenesis, regulation of floral meristem growth) appear among the top terms but are not central to the cluster's main function. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0043330","count":4},{"id":"GO:0045359","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007409","count":4}]},{"hash":"1596697026447331964","title":"Innate Immune Signaling and Interferon Response","description":"The top GO terms cluster around TLR signaling (TLR3, TLR8, TLR10), dsRNA response, interferon production (type II IFN and IFN-\u03b2), and inflammatory response, indicating a core innate immune module driven by pathogen sensing and cytokine signaling. A couple of terms related to development (zygotic axis specification, floral meristem growth) appear as outliers, but the dominant theme supports innate immune sensing and cytokine-mediated inflammation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":6},{"id":"GO:0002322","count":6},{"id":"GO:0045078","count":6},{"id":"GO:0010080","count":6},{"id":"GO:0034166","count":6}]},{"hash":"2239634696907134929","title":"DNA Damage Response and Genome Integrity","description":"The cluster is dominated by terms related to DNA repair and genome maintenance, including homologous recombination, double-strand break repair, telomere maintenance via recombination, and various DNA damage checkpoint signaling. Additional terms on regulation of protein phosphorylation and responses to ionizing radiation support a cohesive DDR-related function, which also ties into meiosis and early embryo development processes such as pronucleus assembly. This suggests a group of proteins devoted to preserving genome integrity during reproduction and development.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000722","count":1},{"id":"GO:0031573","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0044778","count":1},{"id":"GO:0071479","count":1}]},{"hash":"625834393367992548","title":"Toll-like signaling and macrophage activation","description":"This cluster centers on innate immune signaling (Toll pathway, TLR9 signaling), macrophage activation, and cytokine regulation (IL-8) with defense responses to bacteria, suggesting a cohesive theme of inflammatory immune response. Some plant-related terms appear as outliers, but the strongest signal is animal innate immunity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":10},{"id":"GO:0008063","count":10},{"id":"GO:1902350","count":10},{"id":"GO:0010080","count":10},{"id":"GO:0050830","count":10}]},{"hash":"888668942541029161","title":"Unknown","description":"The GO terms in this cluster span RNA splicing, intracellular transport and Golgi-related vesicle fusion, various metabolic and nucleotide biosynthetic processes, and some specialized catabolic pathways, with no single dominant function linking the members. There are no edges or prominent shared pathways, making it unclear what cohesive theme ties the proteins together.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0032781","count":1},{"id":"GO:0048280","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0061615","count":1}]},{"hash":"476382139880787934","title":"Ribosome maturation and protein quality control","description":"The top GO terms strongly point to ribosome biogenesis and RNA processing (RNA guanine-N7 methylation; maturation of LSU and 5.8S rRNA), while also highlighting protein quality control pathways (protein ubiquitination, ERAD, and ER-to-Golgi transport). Together these suggest a cluster focused on ribosome assembly coupled with proteostasis/trafficking mechanisms. Some other terms (actin regulation, DNA repair, cell cycle regulation) are peripheral and less central to the core theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0006888","count":4}]},{"hash":"1299073778865372741","title":"Neural development and synaptic function","description":"The top GO terms point to neural development and synaptic activity (axonogenesis, Schwann cell development, long-term potentiation, visual perception), with additional hints of muscle-nerve interplay and cell-cycle activity common in developing neural systems. Together, these indicate a cluster centered on nervous system maturation and synaptic processes rather than a single muscle or purely proliferative process.","confidence":"High","size":28,"edges":79,"triangles":72,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014850","count":23},{"id":"GO:0007520","count":22},{"id":"GO:0010800","count":22},{"id":"GO:0000278","count":22},{"id":"GO:0014044","count":22}]},{"hash":"649836503804416462","title":"Mitotic cell cycle and vesicle trafficking","description":"The top GO terms point to mitotic processes (cell division, mitotic cell cycle, mitotic spindle assembly, multicellular organism growth) alongside several vesicle trafficking steps (Golgi-to-ER retrograde transport, COPII vesicle budding, endosome-to-lysosome transport, exocytosis docking). This suggests a functional theme where proteins participate in both cell-cycle progression and membrane trafficking essential for mitosis and cytokinesis, hence the combined label.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0006890","count":6},{"id":"GO:0090114","count":6}]},{"hash":"1754114372341414022","title":"Transmembrane Transporters (ions and nutrients)","description":"This cluster is dominated by GO terms for transmembrane transport of diverse substrates (nitrate, nitrite, potassium, phosphate, arabinose, vitamins, xenobiotics) and includes neurotransmitter loading into synaptic vesicles. The unifying theme is membrane transporter activity, suggesting these proteins function as solute transporters across membranes. The lack of network edges may reflect diverse substrates and annotation breadth rather than distinct functional subgroups.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035461","count":2}]},{"hash":"1087768242556683301","title":"RNA Methylation and Processing Cluster","description":"Most terms indicate methylation-driven RNA processing (RNA cap formation, mRNA guanine-N7 methylation, tRNA wobble modification) and broader protein methylation (arginine methylation), suggesting a cluster of methylation machinery. Some listed biosynthetic/response terms appear as peripheral signals.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009102","count":5},{"id":"GO:0036265","count":5},{"id":"GO:0006370","count":5},{"id":"GO:0002098","count":4}]},{"hash":"19620278719169103","title":"Centrosome and Microtubule Organization","description":"The cluster\u2019s terms center on centriole replication and centrosome processes (centrosome separation, spindle pole duplication), mitotic spindle dynamics, astral microtubule nucleation, and related cilium assembly, which together point to roles in centrosome function and microtubule organization during mitosis and ciliogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":1},{"id":"GO:0046785","count":1},{"id":"GO:0007099","count":1},{"id":"GO:0035186","count":1},{"id":"GO:0046599","count":1}]},{"hash":"2120202669486762007","title":"Mitochondrial Transport and Metabolism","description":"The terms are dominated by mitochondrial processes: transport of metabolites and ions (alpha-ketoglutarate, manganese, pyridoxal phosphate), the malate-aspartate shuttle, regulation of mitochondrial membrane potential, and mitochondrial dynamics (fission) with energy-related responses like adaptive thermogenesis and insulin signaling. This points to a mitochondria-centered functional module.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":1},{"id":"GO:0031921","count":1},{"id":"GO:0015742","count":1},{"id":"GO:0006828","count":1},{"id":"GO:0051881","count":1}]},{"hash":"1937079938289013659","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0033617","count":1},{"id":"GO:0051084","count":1},{"id":"GO:0022417","count":1},{"id":"GO:0045041","count":1}]},{"hash":"1529691222955725198","title":"Metabolic catabolism and metabolite/metal transport","description":"The terms cluster around catabolic metabolism (uracil and triglyceride breakdown) and transport of metabolites and cofactors (pyridoxal phosphate, alpha-ketoglutarate) as well as a manganese ion transporter, suggesting a metabolic, transport-oriented module. There are also stress-response signals (response to xenobiotic stimulus, response to cold), but the dominant theme appears to be metabolism with associated transport functions. Confidence in this label is Moderate.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009409","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0019740","count":2}]},{"hash":"1870560301660646338","title":"TLR/Toll Innate Immune Signaling","description":"The top terms concentrate on Toll/TLR-mediated immune signaling (Toll signaling, TLR9 signaling), macrophage activation, and defense against bacteria, which together point to an innate immune response theme for this cluster. Some plant-development terms appear but are less representative of the dominant immune-related functions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":2},{"id":"GO:0008063","count":2},{"id":"GO:1902350","count":2},{"id":"GO:0010080","count":2},{"id":"GO:0050830","count":2}]},{"hash":"6174499589124941","title":"Unknown","description":"The terms span very diverse biological processes across different kingdoms (plants, bacteria) and include lipid metabolism, metabolite biosynthesis, and a signaling term, with no shared function tying the proteins together and no network connections; thus there is no coherent cluster theme to label more specifically.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0008206","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0090410","count":1},{"id":"GO:0010030","count":1}]},{"hash":"1141774660262190923","title":"Unknown","description":"The top GO terms are highly diverse, including cell cycle regulation (G2/M transition, mitotic re-entry, meiosis), developmental differentiation (Leydig cells, mammary gland alveolus), hormonal signaling (leptin, insulin signaling), and even viral transcription, plus miscellaneous transcriptional regulation terms. With no shared pathway or cohesive function across the 28 proteins (and no edges), there isn\u2019t a clear, interpretable cluster role to name.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001165","count":1},{"id":"GO:0010389","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0044321","count":1},{"id":"GO:0046626","count":1}]},{"hash":"334091288124310632","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006398","count":1},{"id":"GO:0033260","count":1},{"id":"GO:0006273","count":1},{"id":"GO:0070936","count":1},{"id":"GO:0051865","count":1}]},{"hash":"86611349825673185","title":"Protein and tRNA methylation","description":"This cluster centers on methylation-related GO terms, including N-terminal peptidyl-serine methylation/dimethylation/trimethylation, tRNA methylation, peptidyl-arginine methylation, and tRNA wobble uridine modification, suggesting a shared function in methyltransferase activity affecting both proteins and RNAs. Some terms appear unrelated (aging, biotin biosynthesis), likely noise, but the dominant pattern supports a methylation-focused role.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035572","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0046690","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0001300","count":1}]},{"hash":"6646805391092621","title":"Mitochondrial and Cytoplasmic Translation","description":"The majority of top GO terms are about translation and its regulation (mitochondrial translation, cytoplasmic translation, initiation, and elongation regulation). A few RNA-processing terms appear but are less frequent, so the cluster mainly groups components of the protein synthesis machinery with some RNA-processing signals as noise.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0032543","count":3},{"id":"GO:0006413","count":3},{"id":"GO:2000767","count":2},{"id":"GO:0045901","count":2}]},{"hash":"1791094541382363962","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":18,"triangles":12,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006412","count":5},{"id":"GO:0090394","count":5},{"id":"GO:0019079","count":5},{"id":"GO:0071035","count":5}]},{"hash":"1570937514529440572","title":"Chemical response and metabolism","description":"The cluster centers on cellular responses to chemical stimuli (ethanol, xenobiotics, herbicides, selenium) and core metabolic processes (glycolysis, signaling via cAMP). A few terms about neural precursor proliferation and erythrocyte differentiation are less clearly connected but may reflect broader regulatory roles tied to cellular state under chemical cues.","confidence":"Medium","size":27,"edges":41,"triangles":29,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045471","count":3},{"id":"GO:0071320","count":3},{"id":"GO:2000179","count":3},{"id":"GO:0007568","count":3}]},{"hash":"677624127292122590","title":"ER Stress Response and Protein Folding","description":"The cluster is enriched for unfolded protein response and ER stress\u2013related terms (e.g., GO:0006986), protein refolding, and ER-associated processes (ERAD, protein maturation), plus translation regulation under ER stress, indicating a cohesive grouping around managing misfolded proteins in the endoplasmic reticulum. Some cell cycle and transcription terms appear less central but do not override the ER-focused theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0051085","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0097428","count":2}]},{"hash":"1813722067313317409","title":"Vascular mechanotransduction and inflammatory signaling","description":"The top GO terms point to endothelial/microvascular responses to mechanical stimuli, endothelial remodeling, cell migration, and inflammatory signaling (e.g., MIP-1 alpha production, NF-kappaB regulation). Although some entries are obsolete or peripheral, the recurring theme is vascular sensing of mechanical cues coupled with inflammatory processes, suggesting a vascular mechanotransduction/inflammation cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0070431","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0007205","count":4}]},{"hash":"87230940405655429","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0010019","count":1},{"id":"GO:0080156","count":1},{"id":"GO:0090615","count":1},{"id":"GO:0070129","count":1}]},{"hash":"224158108933055755","title":"RNA processing and ribosome biogenesis","description":"Top GO terms show mRNA splicing, rRNA maturation, and large subunit biogenesis, pointing to nucleolar RNA processing and ribosome assembly. Additional terms for protein oligomerization, CenP-A chromatin assembly, and ER-Golgi transport are supplementary, but the dominant signal is RNA processing and ribosome production.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000462","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0006888","count":5}]},{"hash":"258410438000528105","title":"COPII-mediated Golgi\u2013ER transport with cytoskeletal dynamics","description":"The top GO terms point to COPII-coated vesicle budding and retrograde Golgi-to-ER transport, indicating vesicle trafficking between Golgi and ER. The presence of actin filament depolymerization suggests necessary cytoskeletal remodeling for this trafficking. While there are some cell cycle\u2013related terms, the dominant pattern across terms is vesicle transport coupled with cytoskeletal changes, justifying this label as representative of the cluster.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0090344","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0002188","count":2}]},{"hash":"375062310643257750","title":"Developmental Differentiation and Signaling","description":"The terms point to developmental processes (pollen sperm differentiation, brown fat cell differentiation, outflow tract morphogenesis, endothelial delamination) and to signaling-related responses (cAMP signaling, ion transport, membrane depolarization, synaptic modulation). This suggests a general theme of development paired with cellular signaling rather than a single specific pathway, justifying a broad developmental/signaling label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":2},{"id":"GO:0040015","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0034767","count":1},{"id":"GO:0086045","count":1}]},{"hash":"1037142600546952834","title":"Toll signaling\u2013driven innate immune activation","description":"The top GO terms cluster around Toll signaling, TLR9 signaling, macrophage activation, and cytokine production, all pointing to a Toll-mediated innate immune response. The inclusion of development-linked terms like zygotic dorsal/ventral axis specification aligns with the developmental role of Toll pathways, reinforcing a shared theme of Toll-related signaling in both development and immunity. A few plant meristem terms appear as outliers, likely annotation noise, but do not override the dominant immune-related theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":5},{"id":"GO:0008063","count":5},{"id":"GO:1902350","count":5},{"id":"GO:0010080","count":5},{"id":"GO:0050830","count":5}]},{"hash":"348891334019527908","title":"Metal ion transport and zinc homeostasis","description":"Most frequent terms cluster around zinc ion import, zinc ion homeostasis, and cadmium ion transport, pointing to a metal ion transport/homeostasis function. A few terms (receptor clustering, exploration behavior, olivetolic acid/cannabinoid biosynthesis) appear unrelated or incidental, which may reflect annotation noise. Overall, the strongest cohesive theme is metal ion transport and zinc homeostasis.","confidence":"High","size":27,"edges":39,"triangles":0,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":2},{"id":"GO:0035640","count":2},{"id":"GO:0046944","count":1},{"id":"GO:1901697","count":1},{"id":"GO:1901696","count":1}]},{"hash":"264664645352419929","title":"Neural stress and development signaling","description":"The top GO terms point to brain-related processes: axonogenesis, substantia nigra development, corticosterone response, and NF-kappaB signaling, with accompanying apoptosis and hydrogen peroxide production, suggesting neural development and stress-response pathways. One term on thiamine biosynthesis stands out as less connected, but the dominant brain-focused terms support this label. Overall, the cluster seems to group proteins involved in neural development and cellular stress signaling rather than a single metabolic pathway.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051412","count":4},{"id":"GO:0009228","count":4},{"id":"GO:0007409","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007205","count":3}]},{"hash":"2226373132967022069","title":"Cell Cycle Control and Signaling","description":"The Top Terms include mitotic cell cycle, regulation of GTPase activity, protein kinase activity, actin nucleation, DNA-templated transcription, mRNA transport, and responses to hypoxia, implying a regulatory module that coordinates cell division, signaling pathways, gene expression, and cytoskeletal remodeling. While there are diverse processes, their common theme is cellular regulation and coordination under stress, rather than a specific specialization, so the label captures the cluster's broad regulatory nature. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1593121217060635583","title":"Unknown","description":"Unknown","confidence":"","size":27,"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:0007049","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0000472","count":2}]},{"hash":"1507522717545585041","title":"Synaptic vesicle trafficking and neurotransmitter secretion","description":"The cluster shows strong enrichment for neuronal synaptic processes, including brain development, synaptic vesicle maturation, neurotransmitter secretion, and regulation of GTPase activity, pointing to a cohesive role in synaptic vesicle trafficking and release. Some terms like ribophagy or egg activation are less central but do not override the dominant synaptic function signal.","confidence":"High","size":27,"edges":24,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060304","count":3},{"id":"GO:0043087","count":2},{"id":"GO:0016188","count":2},{"id":"GO:0031914","count":2}]},{"hash":"1956074999579861630","title":"Unknown","description":"The top GO terms are a mix of immune defense (defense response to virus/bacteria) and unrelated processes (mechanical stimulus response, epithelial polarity, cardiac action potential, etc.), with no clear unifying function across the cluster. This makes a coherent, specific label difficult to justify.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0010845","count":1}]},{"hash":"1647197420932680516","title":"Ribosome Biogenesis and Cell Growth","description":"The cluster is enriched for ribosomal RNA maturation (5.8S, LSU/SSU) and ribosome biogenesis, along with DNA replication and transcription, which together point to a core theme of cellular growth and protein synthesis capacity. The inclusion of centrosome cycle signals and DNA-templated transcription supports links to cell division. Neural development terms are present but may reflect context-specific roles in proliferating neural cells or broader development rather than a neural-specific function. Overall, the dominant signal centers on ribosome biogenesis and growth/division processes.","confidence":"Medium","size":26,"edges":61,"triangles":54,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000902","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0000463","count":5}]},{"hash":"1762924027024383130","title":"Membrane transport and energy metabolism","description":"The top GO terms show a strong emphasis on energy production and membrane transport, including proton motive force-driven ATP synthesis, proton transmembrane transport, and sodium ion transport. Additional terms touch on core cellular processes like translation and cell division, suggesting this cluster centers on fundamental energy-related and membrane-associated functions, with some diverse housekeeping roles included. Overall, the energy/transport theme best captures the dominant signals in this cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0042777","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1254765582841724929","title":"Unknown","description":"The GO terms include DNA replication, cell cycle, and kinetochore-related processes, alongside neuron development and dendrite morphogenesis, with several unrelated cellular processes. This mixture doesn't reveal a single, cohesive function for the cluster, so a precise biological label is not evident.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0048813","count":3}]},{"hash":"629581771198392504","title":"Unknown","description":"The top terms span unrelated areas (mRNA processing, skeletal development, cell cycle, bacterial lipopolysaccharide biosynthesis, calcium transport, stilbene catabolism, P450 epoxygenase pathway, muscle fiber transition, phospholipid metabolism) with no dominant theme and no protein-protein connections, so there isn\u2019t a coherent function to label the cluster beyond Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0070588","count":2}]},{"hash":"294872932447688488","title":"Vesicle trafficking and membrane transport","description":"This cluster is dominated by GO terms tied to intracellular transport routes: ER\u2013Golgi vesicle trafficking, retrograde Golgi-ER transport, endocytosis, Rab signaling, SNARE complex disassembly, and protein targeting to vacuole. Together these indicate a cohesive vesicle trafficking/membrane transport program. The presence of cell division and mitotic spindle assembly terms may reflect related processes during the cell cycle, but the strongest signal is vesicle transport.","confidence":"High","size":26,"edges":19,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":13},{"id":"GO:0006888","count":9},{"id":"GO:0032482","count":8},{"id":"GO:0006623","count":8},{"id":"GO:0050771","count":8}]},{"hash":"1664598456566343673","title":"Craniofacial skeletal development and Wnt signaling","description":"The top GO terms cluster around embryonic cranial skeleton morphogenesis, skeletal system development, and positive regulation of canonical Wnt signaling, suggesting a shared role in craniofacial bone formation and Wnt pathway modulation. Additional terms for DNA-templated transcription and replication reflect generic cellular processes, while a few terms point to ER-stress\u2013related apoptosis and immune signaling, indicating broader network connections beyond skeletal development.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":18},{"id":"GO:0048701","count":17},{"id":"GO:0001501","count":17},{"id":"GO:0090263","count":17},{"id":"GO:0006351","count":17}]},{"hash":"2273966926055088980","title":"Metabolic Biosynthesis and Cellular Stress","description":"The cluster is enriched for carbohydrate- and lipid-biosynthetic GO terms (glycogen, glycolipid, steroid biosynthesis, carbohydrate metabolic process) and related biosynthetic activity (ADP biosynthesis), indicating a core metabolic function. Additional terms such as apoptotic process and DNA repair point to concurrent stress-response pathways that may intersect metabolism, while liver development aligns with metabolic context but is not central. Overall, metabolism-centric labeling with supporting stress-related processes best fits the set.","confidence":"Medium","size":26,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0001889","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0009247","count":2}]},{"hash":"321282139645644050","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903883","count":4},{"id":"GO:0001519","count":4},{"id":"GO:2000637","count":4},{"id":"GO:0018032","count":4},{"id":"GO:1903265","count":4}]},{"hash":"845102157214560161","title":"Developmental Regulation and Cell Proliferation","description":"The top GO terms cluster around multicellular organism development and cell division/mitotic cycle, with supporting signals from actin cytoskeleton remodeling, transcription/splicing, GTPase regulation, and hypoxia response, suggesting a cohesive theme of development coupled to proliferation and cytoskeletal dynamics, rather than a single isolated pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0051301","count":6},{"id":"GO:2000601","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0000278","count":5}]},{"hash":"1304596502620639101","title":"Unknown","description":"The GO terms cover a mix of cell cycle regulation (CDK inhibition), telomere maintenance/capping, muscle and cardiac physiology (response to muscle stretch; cardiac action potential), adipocyte differentiation, and general processes like cell migration and RNA processing. The variety does not point to a single, cohesive function or pathway for the cluster, so a concise, representative label is not identifiable beyond Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0032212","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0035994","count":4},{"id":"GO:1904355","count":4}]},{"hash":"1587768706338400648","title":"Cell Cycle and DNA Damage Response","description":"This cluster is driven by enrichment in mitotic cell cycle and homologous recombination for DSB repair, with additional signals of kinase activity regulation and actin remodeling relevant to mitosis, plus broader gene-expression control (mRNA transport, RNA methylation) observed under stress conditions like hypoxia. The combination fits a theme of cell-cycle progression coupled to DNA damage response and cytoskeletal regulation, though the presence of dispersed terms suggests some functional diversity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0071456","count":5},{"id":"GO:0031954","count":5},{"id":"GO:0051028","count":5}]},{"hash":"201640628469036999","title":"Unknown","description":"The top GO terms cover a broad mix of immune regulation, cardiac electrical activity, vascular remodeling, epithelial polarity, heat response, and general intracellular signaling, with no single unifying function. This diversity suggests the cluster comprises disparate regulatory proteins rather than a cohesive, specific biological pathway, making a confident, specific label difficult.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":4},{"id":"GO:0098907","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0009408","count":4},{"id":"GO:0071642","count":3}]},{"hash":"1117032814350394446","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0031204","count":1}]},{"hash":"606453930008880498","title":"Ion transport and ionic homeostasis","description":"The cluster is dominated by GO terms related to proton and cation transport (proton transmembrane transport, vacuolar acidification, potassium and sodium ion transport), plus cell volume and salt-stress responses. These collectively point to proteins that maintain ionic gradients and pH across membranes and organelles, including proton pumps and cation exchangers, thus defining ionic homeostasis.","confidence":"High","size":26,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007035","count":2},{"id":"GO:0009651","count":1},{"id":"GO:0030007","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0098719","count":1}]},{"hash":"1859603102303489061","title":"T cell lipid signaling and mitochondrial lipid remodeling","description":"These GO terms cluster around T cell biology (IL-2 production; negative regulation of activation-induced cell death) and lipid metabolism/remodeling (ether lipid biosynthesis; cardiolipin remodeling; platelet activating factor biosynthesis; phosphatidylcholine remodeling; triglyceride biosynthesis) along with mitochondrial energy production (mitochondrial ATP synthesis). The convergence suggests a coherent module in which T cell activation and survival depend on mitochondrial lipid dynamics and lipid-derived signals. One term (cutin biosynthetic process) appears out of place, likely annotation noise. ","confidence":"Medium","size":26,"edges":24,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":6},{"id":"GO:0070236","count":5},{"id":"GO:0008611","count":5},{"id":"GO:0035965","count":5},{"id":"GO:0006663","count":5}]},{"hash":"1843370628085876715","title":"Unknown","description":"The terms are highly diverse (myoblast fusion, apoptosis, synaptic plasticity, sphingolipid biosynthesis, ribosomal transcription, microtubule localization, innate immunity, ABA signaling) with no clear shared function or pathway, and there are no interactions in the cluster, suggesting no cohesive theme. Therefore, a generic Unknown label is appropriate.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007520","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0090153","count":2}]},{"hash":"1609524504239257537","title":"Unknown","description":"Top terms are heterogeneous, with nuclear processes (DNA-templated transcription, mRNA splicing, DNA repair) intermingled with vesicle trafficking (COPII budding, Golgi-to-ER transport), development, aging, and other diverse terms. There is no single coherent function tying most proteins together, so a specific label is not supported. ","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0070262","count":2},{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007568","count":1}]},{"hash":"1098181731043624392","title":"Transcription, Translation, and Cell Cycle","description":"The cluster is dominated by transcription and translation-related terms (DNA-templated transcription; formation of translation preinitiation complex; translation reinitiation) and cell division (cell population proliferation; mitotic spindle assembly), suggesting a set of proteins involved in core gene expression and cell-cycle progression. Additional terms such as protein deneddylation, Arp2/3-mediated actin nucleation regulation, and Golgi-to-ER transport reflect broader regulatory and housekeeping roles in the cell. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1941074684164409686","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (cell cycle, lipid catabolism, tissue formation, epithelial polarity, immune/inflammatory regulation, cardiac action potential modulation). There is no clear, single shared function or pathway linking these proteins, so a cohesive cluster label cannot be confidently assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0046338","count":1},{"id":"GO:0046843","count":1},{"id":"GO:0031161","count":1},{"id":"GO:0010845","count":1}]},{"hash":"1978202864109644140","title":"Ribosome biogenesis and rRNA maturation","description":"Most terms describe maturation and processing of rRNA (LSU and 5.8S), export of the large ribosomal subunit, and rRNA methylation, all core steps in ribosome biogenesis. A couple of immune-related terms are present but appear peripheral. Therefore this cluster likely reflects ribosome assembly and rRNA maturation processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0031167","count":1},{"id":"GO:0018027","count":1}]},{"hash":"2149895603290782990","title":"TLR-driven innate immune signaling","description":"The cluster centers on innate immune responses, with multiple GO terms for Toll-like receptor signaling (TLR1, TLR3, TLR10), LPS signaling, dsRNA response, and interferon production, suggesting a cohesive theme of TLR-mediated immunity and interferon signaling; a few terms about plant development appear as noise and do not fit the main theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":3},{"id":"GO:0034130","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0002322","count":3},{"id":"GO:0045078","count":3}]},{"hash":"1865770170879502408","title":"Unknown","description":"The top GO terms cover a mix of transcription regulation, RNA processing, signaling, metabolism, cell adhesion, and cytoskeletal processes, with several obsolete terms, indicating no single cohesive function tying the cluster together. Because of this heterogeneity, there isn\u2019t a representative, specific label that captures the cluster\u2019s biology.","confidence":"","size":25,"edges":24,"triangles":0,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":3},{"id":"GO:0045945","count":2},{"id":"GO:0000289","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0031987","count":2}]},{"hash":"1111181927714054641","title":"Vertebrate mesoderm development and organogenesis","description":"This cluster shows a clear emphasis on embryonic development and tissue morphogenesis, with multiple terms referencing mesoderm formation, lateral mesodermal cell fate, and thyroid gland organogenesis, plus Hedgehog/Smoothened pathway regulation that patterns neural tissue. While there are metabolic terms (glucose and cholesterol biosynthesis), the dominant signal is developmental patterning and organogenesis, occasionally accompanied by cell-matrix adhesion changes relevant to morphogenesis. Confidence: Medium","confidence":"","size":25,"edges":68,"triangles":153,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:1901621","count":4},{"id":"GO:0071374","count":4},{"id":"GO:0006006","count":4},{"id":"GO:0006695","count":4}]},{"hash":"611754016986178157","title":"Organelle Ion and Metabolite Transport","description":"This cluster centers on transport and homeostasis of ions and small molecules across organelles (Golgi calcium and manganese transport, alpha-ketoglutarate and pyridoxal phosphate transport) and on mitochondrial membrane potential regulation and apoptotic changes. The overall theme is inter-organelle transport and maintenance of organelle environments, with one outlier term for photosystem II assembly that may reflect a chloroplast-related role but does not define the cluster\u2019s core function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032472","count":1},{"id":"GO:0032468","count":1},{"id":"GO:0035751","count":1},{"id":"GO:0010270","count":1},{"id":"GO:0008637","count":1}]},{"hash":"992749606580536202","title":"Unknown","description":"The top GO terms span a wide range of unrelated processes (cardiac action potential regulation, GPCR signaling, mitotic cell cycle, GTPase activity, skin development and pigmentation, hypoxia response, autophosphorylation, development, mRNA transport). The lack of cohesive functional theme and the absence of edges in the network suggest the proteins do not share a single representative function, so the cluster cannot be confidently labeled with a specific biological theme.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043588","count":3}]},{"hash":"593725479612224356","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":167,"triangles":573,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0031204","count":1}]},{"hash":"36834160416667322","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":151,"triangles":447,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":3},{"id":"GO:1902039","count":2},{"id":"GO:1900246","count":2},{"id":"GO:0000056","count":2},{"id":"GO:0000472","count":2}]},{"hash":"832166997823315852","title":"Unknown","description":"The terms cover multiple distinct processes (metabolic signaling, angiogenic regulation, lipid synthesis, transcription control) with little overlap beyond generic regulation, so there is no clear shared function to label the cluster. Therefore, a specific, representative name cannot be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033211","count":1},{"id":"GO:0033574","count":1},{"id":"GO:0043537","count":1},{"id":"GO:0006656","count":1},{"id":"GO:0010862","count":1}]},{"hash":"1423796214186080011","title":"Unknown","description":"The top GO terms are a mix of transcription, ubiquitin-dependent protein catabolism, post-translational nitrosylation, various catabolic pathways, and NADPH regeneration, with only one membrane transport item. There is no clear common function or pathway linking these 25 proteins, and the lack of edges/triangles suggests a heterogeneous set rather than a cohesive module, so I cannot assign a specific functional label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0018119","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0010124","count":2}]},{"hash":"786234590873610293","title":"Neural development and translation regulation","description":"Top terms center on cerebral cortex development and visual learning, pointing to neural development processes. Multiple translation-related terms (regulation of translational initiation, formation of translation preinitiation complex, IRES-dependent initiation) and alternative splicing also appear, suggesting coordinated control of gene expression at RNA level. Together, these signals imply proteins involved in neural development that also regulate translation and RNA processing, hence Neural development and translation regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000380","count":2}]},{"hash":"874004910258603750","title":"TLR Signaling and Inflammasome Activation","description":"Most terms cluster around Toll-like receptor\u2013mediated sensing of bacterial components (LPS, lipoproteins), cytokine signaling, and downstream NF-kappaB and NLRP3 inflammasome pathways, indicating innate immune response and inflammation as the main theme. Some terms related to development or extracellular matrix are present but are less central and likely background noise.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034150","count":4},{"id":"GO:1904027","count":4},{"id":"GO:0007352","count":4},{"id":"GO:1900227","count":4},{"id":"GO:0034130","count":4}]},{"hash":"1961397278429140536","title":"TLR/NLRP3 Innate Immune Signaling","description":"Cluster is dominated by GO terms related to innate immune sensing and inflammation: Toll-like receptor signaling (TLR1 and TLR6), lipopolysaccharide signaling, cytokine-mediated signaling, and positive regulation of the NLRP3 inflammasome, point to pathogen recognition and inflammatory responses as the core function. While there are a few less-connected terms (Wnt signaling, dopamine response, collagen organization), the immune signaling terms are the strongest signal, supporting a cohesive theme of TLR/NLRP3-mediated innate immunity. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034150","count":3},{"id":"GO:1904027","count":3},{"id":"GO:0007352","count":3},{"id":"GO:1900227","count":3},{"id":"GO:1904887","count":3}]},{"hash":"1778491174630738835","title":"Cytoskeleton signaling and membrane trafficking","description":"The top GO terms center on regulation of Rho signaling, microspike assembly, ER tubular network formation, and lysosome targeting, all linking cytoskeletal dynamics with membrane trafficking and signaling pathways (e.g., TLR4). While a few terms are broader or peripheral (multicellular development, phosphate transport), the core pattern suggests proteins involved in cytoskeletal remodeling and intracellular trafficking that influence signaling and organelle organization.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0051604","count":1},{"id":"GO:2000185","count":1},{"id":"GO:0006817","count":1}]},{"hash":"1487900448697186955","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for GO terms related to protein synthesis and ribosome assembly, including translation (GO:0006412), ribosomal large subunit assembly (GO:0000027), and ribosomal large subunit biogenesis (GO:0042273), along with tRNA processing (GO:0008033). These suggest a core function in ribosome production and the translation machinery. Some outlier terms (e.g., optic nerve development, mitochondrial DNA repair) may reflect dual roles or annotation noise, but the dominant theme is clearly ribosome-related. Confidence in this label is high.","confidence":"High","size":24,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1059117587633695623","title":"Skeletal muscle proteostasis and metabolism","description":"This cluster centers on skeletal muscle biology, highlighted by ubiquitin-dependent protein degradation (ubiquitin-protein catabolic processes, SCF-dependent proteasomal pathways) and skeletal muscle fiber development, together with glycogen metabolism and calcium signaling relevant to contraction, and locomotion. While some terms reflect broader systemic processes (T cell homeostasis, glucocorticoid signaling) and plant-specific signaling, the core signal points to muscle proteostasis coupled with energy metabolism and contractile function. Overall, the cluster represents skeletal muscle proteostasis and metabolic regulation.","confidence":"High","size":24,"edges":11,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0048741","count":7},{"id":"GO:0009742","count":7},{"id":"GO:0000082","count":7},{"id":"GO:0043029","count":6}]},{"hash":"73025091506415039","title":"Ubiquitin-Proteasome\u2013Wnt Regulators","description":"The terms cluster around regulation of the canonical Wnt signaling pathway, and include several ubiquitin-proteasome\u2013related processes (SCF- and APC-dependent degradation and deubiquitination). This suggests a group of proteins modulating signaling by targeted protein turnover, especially in the Wnt pathway; ancillary immune and stress-related terms may reflect broader signaling cross-talk but do not override the core theme.","confidence":"High","size":24,"edges":23,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0046686","count":3},{"id":"GO:0009432","count":2},{"id":"GO:0002862","count":2},{"id":"GO:0002223","count":2}]},{"hash":"20169218170486453","title":"Vertebrate Development and Metabolic Signaling","description":"This cluster centers on developmental processes (cranial skeleton morphogenesis, thyroid gland development, lateral mesoderm specification) and metabolic/endocrine pathways (insulin receptor signaling, brown fat differentiation), with neural/neuroendocrine elements indicated by dopamine response and neuron maturation regulation, and a rhythmic component suggesting coordinated timing. Together, these terms imply a module integrating vertebrate development with endocrine and metabolic signaling.","confidence":"Medium","size":24,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:1903351","count":6},{"id":"GO:0008286","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0030878","count":5}]},{"hash":"1183888958641348984","title":"mRNA Splicing and Processing Regulation","description":"The cluster is dominated by post-transcriptional RNA processing functions: regulation of translational initiation, mRNA splice site recognition and alternative splicing via the spliceosome, mRNA export from the nucleus, mRNA modification, and control of poly(A) tail length. These collectively point to coordinated regulation of RNA maturation and processing rather than transcription or translation alone, suggesting a cohesive RNA processing/splicing regulatory module.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0001825","count":1},{"id":"GO:0006406","count":1},{"id":"GO:1902625","count":1}]},{"hash":"1759468124783536895","title":"Unknown","description":"The top GO terms span DNA replication, neural development (layer formation, neuron maturation, dopamine response), signaling (JNK cascade), and endocrine/metabolic processes (thyroid gland development, brown fat differentiation), with no single cohesive function linking them. This makes it unclear to assign a specific, representative label for the cluster.","confidence":"","size":24,"edges":212,"triangles":949,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":23},{"id":"GO:0030878","count":22},{"id":"GO:0001952","count":22},{"id":"GO:0048378","count":22},{"id":"GO:0048511","count":22}]},{"hash":"124164137728493502","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0043547","count":2}]},{"hash":"2243054220815295110","title":"DNA replication and mitotic cell cycle","description":"Dominant GO terms are DNA replication, cell division, mitotic cell cycle, and CENP-A chromatin assembly, pointing to proteins involved in genome duplication and chromosome segregation during mitosis. Additional terms like mRNA transport and ER-Golgi trafficking appear but do not define the cluster; the strongest signal is cell-cycle progression.","confidence":"High","size":24,"edges":9,"triangles":0,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0008284","count":3}]},{"hash":"809074801518544124","title":"Golgi and microtubule organization","description":"The terms emphasize Golgi maintenance and vesicle transport, alongside tubulin folding/assembly and centrosome location, suggesting a coordinated role of Golgi trafficking with the cytoskeletal network in cell morphogenesis and migration.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051684","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0007023","count":1},{"id":"GO:0007010","count":1},{"id":"GO:0000902","count":1}]},{"hash":"1700464201646898829","title":"Unknown","description":"The terms span transcription regulation, various growth forms (lateral root branching, pseudohyphal and invasive growth under glucose limitation), and multiple ammonium/nitrogen transport and metabolism processes, with no clear shared function linking all proteins. The lack of edges reinforces the absence of a cohesive theme, so a unique, interpretable label isn\u2019t apparent.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0080181","count":1},{"id":"GO:0001403","count":1},{"id":"GO:0015670","count":1},{"id":"GO:0007124","count":1}]},{"hash":"1314049092566918849","title":"Toll-like Innate Immunity Activation","description":"The cluster is dominated by GO terms related to innate immune signaling and cytokine production (Toll signaling pathway, TLR9 signaling, macrophage activation, dendritic cell cytokine production, IL-8 production, defense against Gram-positive bacteria), suggesting a cohesive theme of Toll-like receptor\u2013mediated immune responses. Some terms referencing plant meristem regulation and zygotic axis specification appear as outliers, likely unrelated or cross-species annotations, but the core pattern points to innate immune activation. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":2},{"id":"GO:0008063","count":2},{"id":"GO:1902350","count":2},{"id":"GO:0010080","count":2},{"id":"GO:0050830","count":2}]},{"hash":"986135778352145365","title":"Brain development and synapse formation","description":"The top GO terms strongly point to neural development and synaptic organization (axonogenesis, corpus callosum development, multicellular organism development, and positive regulation of synapse assembly), with supporting signals related to dopamine response and neural signaling. The presence of DNA replication and G2/M terms suggests involvement of proliferating neural progenitors as well, but the dominant theme remains brain development and synapse formation. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1903351","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0000086","count":2}]},{"hash":"551474443663650597","title":"ERAD and N-glycan trimming","description":"The terms point to ubiquitin-dependent ER-associated degradation and mannose trimming of N-glycans in the ER-Golgi network, suggesting these proteins function in ER quality control and glycoprotein processing.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904154","count":1},{"id":"GO:0036510","count":1},{"id":"GO:0036509","count":1},{"id":"GO:0097466","count":1},{"id":"GO:1904381","count":1}]},{"hash":"1002528280186481334","title":"ER-Golgi trafficking and cell cycle regulation","description":"The top GO terms point to vesicle transport between the ER and Golgi (anterograde and retrograde) and cell cycle/proliferation processes, with additional ties to translation initiation. This suggests a core theme of protein trafficking coupled with growth/division programs in these proteins, justifying a label centered on ER-Golgi transport and cell cycle activity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0006890","count":4}]},{"hash":"1070399262311439006","title":"Cell Cycle and Antiviral Defense","description":"Top GO terms indicate a core theme around mitotic cell cycle and cell division, complemented by innate immune and antiviral responses (innate immune response, defense response to virus, cellular response to exogenous dsRNA). Some signaling and protein interaction terms (positive regulation of canonical Wnt signaling, protein heterooligomerization) and a neuronal activity term (excitatory postsynaptic potential) appear as ancillary associations, possibly reflecting multifunctional proteins. Taken together, the dominant themes point to cell-cycle regulation with antiviral defense involvement, justifying the label with Medium confidence.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0071276","count":2}]},{"hash":"2102187517758027960","title":"Immune signaling and cell fate regulation","description":"These proteins show diverse immune- and stress-related functions: regulation of TLR signaling, T cell homeostasis, lymph node development, and the p38 MAPK cascade, along with controls on apoptosis and necroptosis. Ubiquitination and mRNA decay terms further suggest regulation of signaling and gene expression under immune/inflammatory conditions, pointing to coordinated immune signaling and cell fate decisions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":1},{"id":"GO:0034121","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0043066","count":1}]},{"hash":"2259824452979919279","title":"Toll-Mediated Innate Immune Signaling","description":"Based on the top GO terms, the cluster is enriched for innate immunity and Toll-like receptor pathways: defense response to virus, innate immune response, Toll signaling pathway, and TLR9 signaling. There are also indicative terms for antimicrobial defense (Gram-positive bacteria) and dendritic cell cytokine production. A few plant developmental terms appear, but the dominant theme is host defense signaling via Toll-like receptors, suggesting these proteins function in innate antiviral and antibacterial responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007352","count":4},{"id":"GO:0008063","count":4},{"id":"GO:1902350","count":4}]},{"hash":"1815144586314456937","title":"Unknown","description":"The top GO terms span several unrelated processes (pain detection, SRP-dependent protein targeting, RNA polymerase III transcription, mitotic progression, steroid receptor assembly, interferon response, sex differentiation, and ERAD). There isn't a single cohesive biological theme linking the proteins, so a unified functional label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":2},{"id":"GO:0006614","count":1},{"id":"GO:0001041","count":1},{"id":"GO:0007091","count":1},{"id":"GO:0006463","count":1}]},{"hash":"455017025602460364","title":"Neuronal GPCR Signaling and Synaptic Plasticity","description":"This cluster is dominated by GO terms related to neuronal signaling and synaptic regulation, including neurotransmitter secretion, GPCR signaling pathways, and regulation of synaptic plasticity via receptor localization to the synapse, along with ephrin receptor signaling. While some terms relate to stress responses and cellular homeostasis, the core theme centers on neural communication and synaptic modulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0007205","count":2},{"id":"GO:1900383","count":2},{"id":"GO:1901187","count":2},{"id":"GO:0007269","count":2}]},{"hash":"1222275842593314499","title":"Unknown","description":"The proteins show a mix of scattered metabolic and degradative processes (purine metabolism, lysine/arginine biosynthesis, allantoin/ureide catabolism, peptide catabolism, proteolysis) with an outlier term for Wnt signalosome assembly. The lack of a cohesive functional theme and no network edges among proteins prevent a single, informative label beyond Unknown. ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006144","count":1},{"id":"GO:0009089","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0009442","count":1}]},{"hash":"1724807480586737174","title":"Chromatin remodeling and histone modification","description":"The Top Terms include nucleosome assembly/disassembly and regulation of histone acetylation, pointing to chromatin dynamics and transcriptional regulation. Additional terms touch on microtubule-related processes and cell growth, suggesting a link to cell cycle control as well. Given the sparse term counts but a clear chromatin-centric theme, a concise label around chromatin remodeling and histone modification is appropriate.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0071442","count":1}]},{"hash":"1106514654471778377","title":"Neuronal Synaptic Secretion and Plasticity","description":"The cluster is dominated by GO terms related to neurotransmitter secretion, regulation of synaptic vesicle exocytosis, and long-term potentiation, pointing to a core function in synaptic transmission and plasticity. Other terms like myoblast fusion, skin development, VEGF signaling, and cell cycle appear as broader or secondary annotations, but do not outweigh the neural synaptic signal.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:0016540","count":2},{"id":"GO:0007520","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1385464409728824296","title":"RNA processing and ribosome biogenesis","description":"The cluster is enriched for spliceosome-related terms (mRNA splicing via spliceosome, splicing regulation, splice site recognition), mRNA export, and translational initiation regulation, plus ribosome biogenesis. This points to coordinated RNA processing and ribosome assembly, with links to translation control and RNA-level regulation (including ncRNA-mediated silencing). ","confidence":"High","size":23,"edges":22,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0048026","count":2},{"id":"GO:0010610","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1484193124887131946","title":"Translation initiation & ribosome biogenesis","description":"Based on the dominant GO terms, the cluster centers on components and processes of the ribosome and translation initiation, including formation of the translation preinitiation complex, translation reinitiation, ribosome biogenesis, and regulation of translational initiation, with additional links to mRNA export and transcription. The cohesive theme is protein synthesis machinery assembly and initiation.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":4}]},{"hash":"762164351802138932","title":"Transmembrane nutrient and xenobiotic transporters","description":"The cluster is dominated by GO terms for transmembrane transport of diverse substrates (vitamins, sugars, nitrate, phosphate, sialic acid) and xenobiotics, plus a related function in neurotransmitter loading into synaptic vesicles, suggesting a group of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015751","count":2}]},{"hash":"342517697595870530","title":"Golgi-ER Vesicle Trafficking","description":"The top GO terms point to functions at the Golgi and ER-Golgi vesicle trafficking, including Golgi ribbon formation, ER-to-Golgi transport, and vesicle fusion with the Golgi. This suggests the cluster represents proteins involved in Golgi apparatus organization and vesicular trafficking, with a few other terms likely noise or broad cellular roles. Therefore, a concise label is Golgi-ER Vesicle Trafficking.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":2},{"id":"GO:0006888","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0048280","count":2},{"id":"GO:0046677","count":2}]},{"hash":"283045513878114445","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000134","count":3},{"id":"GO:1903740","count":3},{"id":"GO:0030150","count":3},{"id":"GO:0046902","count":3},{"id":"GO:0010867","count":3}]},{"hash":"2027968730252587295","title":"RNA Processing and Gene Silencing","description":"The top GO terms point to RNA metabolism and silencing: polyadenylation, mRNA cleavage, rRNA/tRNA processing, and transcription termination, plus RISC assembly and global gene silencing by mRNA cleavage. This suggests a cohesive cluster of RNA processing machinery and RNA interference pathways. An outlier term (cerebellar cortex development) and some obsolete GO terms likely reflect annotation noise rather than a different function.","confidence":"High","size":23,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":1},{"id":"GO:0090202","count":1},{"id":"GO:0000448","count":1},{"id":"GO:0098789","count":1},{"id":"GO:0021695","count":1}]},{"hash":"1817438528497673746","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903883","count":4},{"id":"GO:0001519","count":4},{"id":"GO:2000637","count":4},{"id":"GO:0018032","count":4},{"id":"GO:1903265","count":4}]},{"hash":"1594369263901934911","title":"RNA Splicing and Processing Regulation","description":"This cluster is enriched for terms related to mRNA splicing regulation (including spliceosome-mediated and alternative splicing), mRNA export, and mRNA modification, as well as regulation of translation initiation. Together these point to a cohesive role in post-transcriptional gene expression control, especially at RNA processing steps, with a minor developmental signal via blastocyst formation.","confidence":"High","size":23,"edges":86,"triangles":231,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0006406","count":2},{"id":"GO:1902625","count":2}]},{"hash":"1328975998279521485","title":"Plant flavonoid and lignin biosynthesis","description":"The GO terms are dominated by plant secondary metabolism: anthocyanin-containing compounds, cyanidin, quercetin glucosides, flavonoid biosynthetic processes, and lignin metabolism, indicating a cluster of proteins involved in flavonoid and lignin biosynthesis. A few terms related to other tissues (platelet aggregation, axon paranode localization, kidney morphogenesis) appear as minor outliers.","confidence":"Medium","size":23,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":2},{"id":"GO:0060315","count":2},{"id":"GO:0072284","count":2},{"id":"GO:0016999","count":2},{"id":"GO:0033303","count":2}]},{"hash":"1905500099579955562","title":"RNA processing and stress signaling","description":"The cluster centers on RNA processing activities\u2014mRNA deadenylation, splicing, and nuclear surveillance\u2014with related spliceosome-related steps, plus a stress-activated signaling context (response to heat and p38 MAPK cascade) and linked signaling pathways (Wnt). A few immune-related terms appear, but the dominant theme tying most members together seems to be RNA maturation/decay in the context of cellular stress signaling, with ancillary hints toward immune regulation. ","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0008380","count":1}]},{"hash":"521886761747816234","title":"Muscle contraction machinery and calcium signaling","description":"Most terms point to muscle function and cytoskeletal assembly, including cardiac myofibril and myosin II filament assembly, regulation of cardiac muscle contraction, and negative regulation of ryanodine receptor calcium release. This suggests the cluster centers on the muscle contraction apparatus and calcium signaling pathways, with a few outlier terms related to other cytoskeletal roles. ","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035191","count":3},{"id":"GO:1901077","count":3},{"id":"GO:0010842","count":3},{"id":"GO:0055003","count":3},{"id":"GO:0007614","count":3}]},{"hash":"55839962653635765","title":"Cerebral cortex development and neural differentiation","description":"This cluster is dominated by terms tied to brain development, especially cortical layer formation and neuron maturation, along with dopamine signaling and rhythmic processes. Additional signals point to broader developmental roles (thyroid, adipose) but the strongest theme centers on neural development and cortical differentiation, making the label representative.","confidence":"High","size":23,"edges":151,"triangles":427,"max_degree":21,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030878","count":23},{"id":"GO:0001952","count":23},{"id":"GO:0048511","count":23},{"id":"GO:1903351","count":23},{"id":"GO:0090336","count":23}]},{"hash":"1552032997108719805","title":"Innate antiviral immune signaling","description":"The cluster is dominated by GO terms tied to innate immunity and antiviral responses, including innate immune response, response to exogenous dsRNA, and positive regulation of interferon-beta production, which together point to antiviral signaling and early immune defense. Some terms like placenta development or DNA replication/repair may reflect ancillary or housekeeping roles within the protein set, but the core theme is innate antiviral defense.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:2000114","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0007040","count":2},{"id":"GO:0050830","count":2}]},{"hash":"2260303152359804584","title":"Unknown","description":"The top GO terms span diverse processes including protein complex assembly, cortex localization, signaling (MyD88/TLR and glucocorticoid), cell cycle regulation, metal response, and metabolism, with no clear single function tying most terms together. The absence of edges supports the idea that these proteins do not form a cohesive functional module, so Unknown is the appropriate label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":3},{"id":"GO:0071574","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0002755","count":2}]},{"hash":"837372216712570041","title":"Transcription Regulation and RNA Processing","description":"The GO terms cluster around DNA-templated transcription, mRNA processing (splicing and capping), and regulation of transcription elongation by RNA polymerases I and II, plus related processes like transcription-coupled repair and heterochromatin formation, indicating a core function in transcription control and RNA processing.","confidence":"High","size":23,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0008298","count":1},{"id":"GO:0090262","count":1},{"id":"GO:2001209","count":1}]},{"hash":"1787737666890734030","title":"Unknown","description":"The top terms span chromatin assembly, Rho signaling, lipoprotein particle assembly, dendritic spine regulation, sodium transport, myeloid apoptosis, floral organ abscission, phosphatidylinositol biosynthesis, synaptic vesicle budding, and podosome assembly, showing no single coherent function across the cluster. The lack of a unifying theme and the absence of interactions imply no common biological role, so the appropriate label is Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006335","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0034379","count":1},{"id":"GO:0061000","count":1},{"id":"GO:1902307","count":1}]},{"hash":"2169577094380413490","title":"mRNA Splicing and Processing Regulation","description":"Top GO terms indicate a coherent focus on post-transcriptional mRNA processing: regulation of translational initiation, splice site recognition and alternative splicing, nuclear export, and mRNA modification, including poly(A) tail regulation. This points to a cluster of proteins involved in preparing and regulating mature mRNA prior to translation, rather than transcriptional control. The lack of edges suggests the cluster is defined by shared functional annotations rather than known physical interactions, but the common theme is clear.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0001825","count":1},{"id":"GO:0006406","count":1},{"id":"GO:1902625","count":1}]},{"hash":"1995987614663255315","title":"Peroxisome biogenesis and inheritance","description":"The cluster is dominated by GO terms related to peroxisome biology\u2014membrane biogenesis, inheritance, protein import into peroxisomes, ER-dependent organization, and fission\u2014suggesting a cohesive theme around peroxisome formation, maintenance, and distribution. A pollen differentiation term is present but secondary. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":2},{"id":"GO:0016557","count":1},{"id":"GO:0045033","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0045046","count":1}]},{"hash":"1296035527972061243","title":"TLR-driven antiviral innate immune response","description":"This cluster centers on innate immune sensing and signaling, with GO terms for multiple TLR pathways (TLR3/4/9/10), dsRNA response, macrophage activation, dendritic cell cytokine regulation, and interferon production, indicating a coordinated antiviral defense program.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002730","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0034142","count":2},{"id":"GO:0034166","count":2}]},{"hash":"1787322165551766107","title":"Unknown","description":"The GO terms are highly diverse (meiotic recombination regulation, cardiac action potential depolarization, inflammatory protein production, endothelial/epithelial polarity, foam cell differentiation, PARylation, general signaling, kinase regulation). There is no single cohesive function linking these terms, so a concise, representative cluster name cannot be assigned. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":1},{"id":"GO:1900827","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0090162","count":1}]},{"hash":"520254021174030218","title":"Developmental morphogenesis and retinoid metabolism","description":"These GO terms point to morphogenesis across multiple tissues (heart, blood vessels, inner ear, pituitary) and neuromuscular posture control, alongside retinoid-related processes (retinol and 9-cis-retinoic acid biosynthesis) and other metabolic activities. The shared theme appears to be vertebrate development with retinoid signaling and associated metabolism, rather than a single narrow function. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0046521","count":1},{"id":"GO:0001568","count":1}]},{"hash":"792197786024283063","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0070475","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1740001323307440260","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071040","count":1},{"id":"GO:1902466","count":1},{"id":"GO:0042780","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0098530","count":1}]},{"hash":"315372277294906810","title":"Unknown","description":"The GO terms span immune defense (defense against Gram-positive bacteria, TLR signaling, LPS signaling, detection of bacterial lipopeptide), signaling pathways (Wnt signalosome, CAMKK-AMPK), and developmental/metabolic processes (zygotic axis specification, kidney size regulation, xylan catabolic process, dopamine response), with no single unifying function. This mix suggests no coherent theme for the cluster, so it\u2019s best labeled Unknown. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0045493","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1904887","count":2},{"id":"GO:0034130","count":2}]},{"hash":"1401359818278641492","title":"Bacterial nutrient transport and xenobiotic export","description":"The cluster is dominated by transport-related GO terms (methionine, oligosaccharide, teichoic acid transport; xenobiotic export; bacteriocin transport) plus DNA-templated transcription, pointing to regulatory proteins in bacteria that coordinate nutrient uptake and export of compounds. The presence of an obscure ommochrome biosynthesis term and fatty acid catabolism is less coherent but doesn't override the transport focus. Therefore a label emphasizing bacterial transport and nutrient handling fits best.","confidence":"Medium","size":22,"edges":20,"triangles":0,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007584","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006727","count":3},{"id":"GO:0015821","count":3},{"id":"GO:0015772","count":3}]},{"hash":"1934055755760403219","title":"Unknown","description":"The top GO terms span tRNA wobble uridine modification, antibacterial humoral and innate mucosal immune responses, translation, and both positive and negative regulation of angiogenesis, plus senescence regulation. These cover RNA modification, basic protein synthesis, immune defense, and vascular development, which do not cohere into a single clear biological theme for this cluster. Therefore there is no well-supported common function to label it; Unknown with None.","confidence":"","size":22,"edges":29,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":2},{"id":"GO:0019731","count":1},{"id":"GO:0002227","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0043537","count":1}]},{"hash":"354457969745318440","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":10,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098912","count":2},{"id":"GO:0014051","count":2},{"id":"GO:0001938","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0000060","count":2}]},{"hash":"1679798739312479455","title":"Embryonic neural development with ER-stress\u2013driven apoptosis","description":"The cluster is dominated by developmental processes, especially neural development (forebrain development, neural tube closure) and broader embryonic development (multicellular organism development, skeletal system development). It also includes core gene expression activities (DNA-templated transcription, DNA replication), plus an intrinsic apoptotic pathway triggered by ER stress and cadmium response, suggesting a theme of developmental regulation coupled with stress-induced apoptosis.","confidence":"High","size":22,"edges":53,"triangles":28,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0030900","count":8},{"id":"GO:0070059","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0006349","count":8}]},{"hash":"1322450849409148186","title":"Mitochondrial calcium handling and import","description":"The top GO terms cluster around mitochondrial functions (protein import into the mitochondrial matrix; regulation of mitochondrial membrane permeability) and calcium signaling (postsynaptic cytosolic Ca2+ concentration, ryanodine receptor activity). Additional terms touch on cell state transitions (EMT) and metabolic regulation (G1/S, triglyceride biosynthesis), which can be linked to mitochondria-driven signaling and Ca2+-dependent processes. This suggests a theme of mitochondrial roles in calcium homeostasis and related signaling, rather than a single straightforward pathway.","confidence":"Medium","size":22,"edges":26,"triangles":1,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":5},{"id":"GO:2000134","count":4},{"id":"GO:1903740","count":4},{"id":"GO:0030150","count":4},{"id":"GO:0046902","count":4}]},{"hash":"1150416898738132880","title":"Cell Cycle Regulation and Vesicle Transport","description":"Dominant GO terms in this cluster center on DNA replication, G1/S transition, and meiotic cell cycle, along with kinetochore localization, which strongly point to cell-cycle regulation. Additionally, endoplasmic reticulum to Golgi vesicle transport indicates intracellular trafficking. Some neural-related terms (excitatory postsynaptic potential, response to cocaine) appear but are less representative of the core theme, making this label a best-fit synthesis of the primary signals. ","confidence":"Medium","size":22,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0070940","count":5},{"id":"GO:0014044","count":4},{"id":"GO:0034501","count":4}]},{"hash":"1038524925124502998","title":"Protein Synthesis and tRNA Processing","description":"The cluster is enriched for translation and aminoacylation (lysyl-, methionyl-, phenylalanyl-tRNA) and tRNA processing, pointing to the protein synthesis machinery. Some terms related to blood vessel morphogenesis and lipid metabolism are present but seem incidental to the core translation theme.","confidence":"Medium","size":22,"edges":31,"triangles":10,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006430","count":1},{"id":"GO:0006431","count":1},{"id":"GO:0048514","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0051351","count":1}]},{"hash":"1034116693122322355","title":"Vacuolar amino acid transporters","description":"Most GO terms cluster around movement of amino acids across the vacuolar membrane (lysine, histidine, tyrosine, asparagine) and related ion transport, suggesting a set of vacuolar transport proteins. A couple of terms (root cap development, rRNA processing) appear unrelated and likely annotation noise. Overall, the dominant theme is vacuolar amino acid transport.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":1},{"id":"GO:1901482","count":1},{"id":"GO:0089707","count":1},{"id":"GO:0006867","count":1},{"id":"GO:0090514","count":1}]},{"hash":"260839202873527646","title":"Innate antiviral signaling and xenophagy","description":"The cluster is dominated by GO terms for innate immune sensing and antiviral pathways (innate immune response, LPS signaling, dsRNA response, interferon-beta production, TLR9 signaling, dendritic cell cytokine regulation) and regulation of xenophagy, indicating a group of proteins involved in pathogen recognition and autophagic defense. A few terms related to dopamine signaling and synapse assembly appear incidental to this core immune theme.","confidence":"Medium","size":22,"edges":17,"triangles":0,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0043330","count":4},{"id":"GO:0045359","count":4},{"id":"GO:1903351","count":3}]},{"hash":"2220187314696064746","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006311","count":3},{"id":"GO:0000472","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0016441","count":2},{"id":"GO:0000480","count":2}]},{"hash":"2071506379508640612","title":"Muscle and Heart Development","description":"This cluster is dominated by GO terms for skeletal muscle differentiation, skeletal muscle fiber development, and heart development, indicating proteins work together in muscle and cardiac tissue formation. Additional regulatory terms (transcription by RNA polymerase II, ubiquitin-dependent protein catabolic processes, and deadenylation-dependent decay) suggest coordinated gene regulation and protein turnover during development, with a broader theme of regulatory control over development and tissue maturation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0035544","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0045944","count":2}]},{"hash":"457446299469512387","title":"ER-Golgi trafficking and GTPase signaling","description":"The cluster\u2019s top GO terms emphasize small GTPase-mediated signal transduction and ER-to-Golgi/protein transport, including vesicle trafficking and membrane dynamics; additional terms for ER stress response, microautophagy, and transcription are present but less central. This suggests a cohesive theme around ER-associated trafficking and membrane organization driven by GTPase regulators.","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0034976","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006888","count":1}]},{"hash":"41913707502666799","title":"Motile cilium assembly and movement","description":"Top GO terms center on ciliogenesis and motile cilia function (axoneme assembly, motile cilium assembly, cilium movement), indicating a cluster of proteins involved in building and driving motile cilia; other terms (ER-Golgi transport, mitochondrial potential, apoptosis) are present but less representative.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002037","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0008631","count":1},{"id":"GO:0035082","count":1}]},{"hash":"1607502555849117737","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030422","count":1},{"id":"GO:0048024","count":1},{"id":"GO:0051209","count":1},{"id":"GO:0035196","count":1},{"id":"GO:0051533","count":1}]},{"hash":"1592972965987193907","title":"Methylation and Metabolite Transport","description":"This cluster shows a pattern of methylation-related activities (peptidyl-lysine dimethylation, N-terminal peptidyl-glycine methylation, rRNA methylation) alongside transport of key metabolites and ions (pyridoxal phosphate, alpha-ketoglutarate, manganese). While some biosynthetic processes appear, the clearer common theme is methylation capability paired with metabolite transport, suggesting a group enriched for methyltransferases and related transport functions. Confidence: Medium","confidence":"Medium","size":22,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0018013","count":2},{"id":"GO:0017000","count":2}]},{"hash":"949781637891091277","title":"Unknown","description":"Top terms are highly diverse (DNA-templated transcription, viral process, mesodermal differentiation, various metabolic and chromatin-related terms) and include obsolete GO entries, with no clear shared pathway or function tying the 22 proteins together; there are also no edges, indicating a heterogeneous or noisy cluster. Therefore no coherent label can be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0018401","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0042619","count":2}]},{"hash":"1787039948943257487","title":"Mitochondrial Transport and Energy Regulation","description":"This cluster centers on mitochondrial-related processes: transport of various metabolites and ions (heme, alpha-ketoglutarate, pyridoxal phosphate, manganese), regulation of mitochondrial membrane potential, and energy/stress responses (adaptive thermogenesis, insulin signaling) along with apoptotic mitochondrial changes, indicating a set of proteins involved in mitochondrial transport and energy homeostasis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015886","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0008637","count":1},{"id":"GO:0031921","count":1},{"id":"GO:0015742","count":1}]},{"hash":"1014113253527721488","title":"Mitotic cell cycle and spindle organization","description":"The set is dominated by mitosis-related GO terms: mitotic cell cycle, establishment of mitotic spindle orientation, mitotic centrosome separation, and positive regulation of mitotic processes, indicating a cohesive cluster of proteins involved in cell division and spindle dynamics. Additional terms on GTPase and serine/threonine kinase activity suggest signaling regulation concurrent with mitosis, while ER-to-Golgi transport and mRNA transport may reflect general cellular logistics linked to proliferating cells. Overall, the core theme is mitotic regulation and spindle organization.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0031954","count":2}]},{"hash":"145707801197277435","title":"Diverse Solute Transmembrane Transporters","description":"These proteins show a collection of transmembrane transport GO terms across a variety of substrates (nitrate, nitrite, xylose, sugars, cations, etc.), suggesting a shared role in moving diverse solutes across membranes. The absence of a tight, single-substrate signal and the presence of a mix of transport-related terms support a general transport-function label rather than a highly specific one. Therefore, a label that emphasizes \u201csolite transmembrane transporters\u201d best represents the cluster without overfitting to a particular substrate.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":1},{"id":"GO:0071332","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0052106","count":1},{"id":"GO:0060731","count":1}]},{"hash":"709919734828829329","title":"Translation Initiation Regulation and RNA Surveillance","description":"This cluster is dominated by GO terms tied to translation initiation and preinitiation complex formation, plus viral IRES/termination initiation terms, indicating a core involvement in regulating protein synthesis. Additional terms point to RNA quality control (non-stop decay, RNA surveillance) and ubiquitin-dependent protein turnover, suggesting coordinated control of translation and mRNA fate. Minor signals for signaling pathways (Wnt) and development appear peripheral to the main theme. Overall, the proteins appear connected through translational regulation and mRNA decay mechanisms rather than a single non-translation function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0090263","count":2}]},{"hash":"1054294574588506970","title":"Unknown","description":"These terms span several very different areas\u2014membrane transport and xenobiotics, immune/cell-cycle regulation, signaling, cardiac/muscle structure, and even yeast bud-neck localization\u2014yielding no clear, single function tying the cluster together. Therefore, a specific, representative label cannot be confidently assigned.","confidence":"","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0006855","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0051447","count":2},{"id":"GO:0045762","count":2}]},{"hash":"1028441015659379065","title":"Broad membrane transport and secretion","description":"The cluster's top GO terms concentrate on transmembrane transport of diverse molecules (vitamins, xenobiotics, methionine, teichoic acids) and export/secretion (type I secretion system, bacteriocin transport, ceramide translocation). This points to a cohesive theme of membrane-associated transport and protein secretion across substrates, with lipids and small molecules.","confidence":"High","size":21,"edges":19,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015821","count":2},{"id":"GO:0046618","count":2},{"id":"GO:0043213","count":2}]},{"hash":"812181625250073961","title":"Developmental growth and differentiation signaling","description":"This cluster centers on regulation of cell proliferation and death (mitotic centrosome separation, apoptotic process, negative regulation of proliferation), along with differentiation and organ/tissue development (keratinocyte differentiation, thyroid gland development, brown fat differentiation). It also highlights growth-control signaling (Hippo), cell\u2013matrix adhesion, circadian/rhythmic processes, and neural/molecular responses (dopamine). Together, these terms suggest a theme of coordinated growth, development, and tissue differentiation rather than a single specific function. ","confidence":"Medium","size":21,"edges":18,"triangles":3,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007100","count":16},{"id":"GO:0006915","count":16},{"id":"GO:0060044","count":16},{"id":"GO:0030216","count":16},{"id":"GO:0035329","count":16}]},{"hash":"515694841725903125","title":"Unknown","description":"Top terms cover mitochondrial assembly, immune signaling, plant development, and stress responses, with little overlap. Because there is no clear shared function across terms, a single cohesive label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":1},{"id":"GO:0045600","count":1},{"id":"GO:0032981","count":1},{"id":"GO:0007352","count":1},{"id":"GO:0008063","count":1}]},{"hash":"822695612780521980","title":"Unknown","description":"The top terms span cytoskeletal morphogenesis and Rho GTPase signaling, nutrient response, RNA processing, DNA replication, lipid A biosynthesis, myelination, and apoptotic signaling, with no single cohesive theme tying all proteins together. Therefore no representative label can be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0070940","count":2},{"id":"GO:0009245","count":2}]},{"hash":"186116161495235752","title":"Ubiquitin Deubiquitination Cluster","description":"The top GO terms show a clear emphasis on deubiquitination (K29-linked, K48-linked, and H2A K63-linked deubiquitination), suggesting a shared theme around ubiquitin processing. Yet the cluster also includes a mix of unrelated processes (fungal cell wall biogenesis, splicing, ripoptosome assembly, FAD transport, etc.), indicating heterogeneity. Thus, the label highlights the strongest common function while acknowledging diversity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035523","count":2},{"id":"GO:0071433","count":1},{"id":"GO:0009272","count":1},{"id":"GO:0061454","count":1},{"id":"GO:0015883","count":1}]},{"hash":"1225378474539885815","title":"TLR-driven antiviral innate response","description":"This cluster shows strong enrichment for innate immune and antiviral signaling terms, including innate immune response, response to exogenous dsRNA, defense against virus, and interferon-beta production, along with multiple toll-like receptor pathways (TLR3, TLR10) and MyD88-dependent signaling, indicating a cohesive module for viral sensing and inflammatory chemokine production.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":11},{"id":"GO:0043330","count":10},{"id":"GO:0045359","count":10},{"id":"GO:0051607","count":10},{"id":"GO:0050830","count":9}]},{"hash":"2019424208922994088","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006398","count":1},{"id":"GO:0033260","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0034121","count":1},{"id":"GO:0000122","count":1}]},{"hash":"1435546106571814656","title":"Unknown","description":"The top GO terms span immune defense (defense to Gram-positive bacteria, MIP-1 alpha production), endothelial and epithelial processes (endothelial delamination, epithelial polarity), membrane signaling (membrane depolarization regulation), and other disparate functions (pinocytosis, recombination regulation, ADP-ribosylation). There is no clear, coherent shared function or pathway linking these proteins, and the cluster shows no edges or structured connectivity, so a single representative label cannot be confidently assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0050830","count":2},{"id":"GO:0010845","count":2},{"id":"GO:1900827","count":2}]},{"hash":"538097122485188148","title":"Mitotic DNA Replication Machinery","description":"This cluster is dominated by GO terms describing mitotic DNA replication and the replication machinery: mitotic DNA replication, DNA strand elongation in mitosis, mitotic DNA replication initiation, preinitiation complex assembly, and GINS complex assembly. Even with no detected interactions, these terms collectively point to components and steps of the mitotic replisome and related replication processes, including break-induced replication. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0032508","count":1},{"id":"GO:0001833","count":1},{"id":"GO:1902969","count":1}]},{"hash":"1226426084035372101","title":"Ubiquitin-Proteasome\u2013Mediated Degradation","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, including ubiquitin-dependent ERAD, SCF-dependent proteasomal degradation, and K48-linked ubiquitination, pointing to a core function in tagging proteins for proteasomal breakdown. The inclusion of peroxisome matrix protein import aligns with known roles of ubiquitination in recycling peroxisome import receptors, reinforcing a unifying proteostasis theme. Some terms are deprecated, but overall the shared function is protein turnover via ubiquitin tagging and degradation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0046621","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0051865","count":4}]},{"hash":"1164336924377061384","title":"Toll/TLR innate immune signaling","description":"The top GO terms are dominated by innate immune pathways, including Toll signaling, Toll-like receptor 9 signaling, macrophage activation, and cytokine production (IL-8 regulation, dendritic cell cytokine regulation). Although a couple of terms relate to development (zygotic axis specification, meristem regulation), the prevailing theme is Toll/TLR-mediated immune signaling and inflammatory responses, suggesting a functional cluster around innate immunity rather than development. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":4},{"id":"GO:0008063","count":4},{"id":"GO:1902350","count":4},{"id":"GO:0010080","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1365774569415339306","title":"Mitochondrial Transport and Energy Metabolism","description":"These proteins show enriched GO terms related to mitochondria: transport of key metabolites (alpha-ketoglutarate, malate-aspartate shuttle, pyridoxal phosphate, manganese ions), regulation of mitochondrial membrane potential, mitochondrial membrane fission, and apoptotic mitochondrial changes. Additional terms for adaptive thermogenesis and cellular response to insulin suggest coordinated energy metabolism and signaling linked to mitochondrial function. Together, they point to a cluster centered on mitochondrial transport and energy metabolism.","confidence":"High","size":21,"edges":17,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":7},{"id":"GO:0031921","count":7},{"id":"GO:0015742","count":7},{"id":"GO:0006828","count":7},{"id":"GO:0051881","count":7}]},{"hash":"425728146229967294","title":"Methylation-Driven Signaling Regulators","description":"This cluster centers on protein methylation processes (N-terminal peptidyl-glycine methylation; peptidyl-lysine dimethylation) and includes terms tied to broader signaling and regulatory roles (calcium-mediated signaling, excitatory postsynaptic potential, IL-1 beta production, cortisol biosynthesis, angiogenesis, blood vessel development). The common thread appears to be proteins involved in signaling modulation, potentially via methylation-related enzymatic activity, rather than a single, narrow pathway. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0018013","count":4},{"id":"GO:0018027","count":4},{"id":"GO:0060079","count":4}]},{"hash":"1256569920457470822","title":"Unknown","description":"The terms span both gene expression machinery (nonsense-mediated decay, translation) and cell proliferation, but also a disparate set of lipid/mitochondrial processes (ether lipid biosynthesis, cardiolipin remodeling, PAF biosynthesis, mitochondrial ATP synthesis) and a plant-specific cutin term, giving no single cohesive theme for a concise label.","confidence":"","size":21,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0070236","count":2}]},{"hash":"963493465725486466","title":"Mitochondrial energy metabolism and membrane potential","description":"The top GO terms point to mitochondrial processes: regulation of mitochondrial membrane potential, malate-aspartate shuttle, transport of key metabolites (alpha-ketoglutarate, pyridoxal phosphate), metal ion transport (manganese), and energy-related phenomena like adaptive thermogenesis and insulin response. Together they suggest a cohesive theme around mitochondrial energy production and metabolic regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":3},{"id":"GO:0008637","count":2},{"id":"GO:0031921","count":2},{"id":"GO:0015742","count":2},{"id":"GO:0006828","count":2}]},{"hash":"2249239455451739311","title":"Innate immune signaling and xenophagy","description":"The cluster is dominated by immune- and autophagy-related terms: NOD2 signaling, defense response to Gram-positive bacteria, interleukin-8 production, and positive regulation of xenophagy, suggesting a core theme of innate immune activation coupled with autophagic defense. Some terms reflect general protein turnover and transcription, but the immune/autophagy signals are the strongest link.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:0046827","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0050830","count":2}]},{"hash":"784166032258100741","title":"DNA Damage Repair and Checkpoint Regulation","description":"The cluster's terms predominantly center on DNA repair and cell-cycle control (intra-S checkpoint signaling, mismatch repair, meiotic repair, recombination), indicating a genome integrity maintenance theme. Additional terms point to protein quality control and stress-responsive regulation that can intersect with repair pathways, supporting a cohesive but broad connection around DNA damage response.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002091","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0031573","count":1},{"id":"GO:0006298","count":1},{"id":"GO:0010193","count":1}]},{"hash":"1307848244062971233","title":"Unknown","description":"The GO terms span renal absorption, circadian regulation, locomotion, ubiquitination, multiple developmental programs (flower, skeletal muscle, nervous system), immune signaling, and tRNA modification, with no clear single functional theme binding them all. A concise, cohesive label is not supported by the data.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070294","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0036268","count":2},{"id":"GO:1990390","count":2},{"id":"GO:0009911","count":2}]},{"hash":"1268424636970198128","title":"TLR signaling and interferon-mediated inflammation","description":"The top GO terms heavily point to innate immune sensing via Toll-like receptors (TLR3, TLR8, TLR10), response to dsRNA, and production of interferons (IFN-\u03b2 and type II IFN) as well as inflammatory responses, suggesting a cohesive theme of TLR-driven antiviral/innate immune signaling. A couple of terms related to plant development appear as outliers, but they do not override the dominant immune-signaling pattern.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":7},{"id":"GO:0002322","count":7},{"id":"GO:0045078","count":7},{"id":"GO:0010080","count":7},{"id":"GO:0034166","count":7}]},{"hash":"1278418319148923517","title":"TLR-driven innate immune signaling","description":"Dominant terms center on Toll-like receptor pathways (TLR1/6), lipopolysaccharide/LPS sensing, cytokine-mediated signaling, and regulation of the NLRP3 inflammasome with non-canonical NF-kappaB involvement, pointing to innate immune recognition and inflammatory signaling as the cluster\u2019s core function; a few non-immune terms are present but less representative.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":2},{"id":"GO:1904027","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0034130","count":2}]},{"hash":"597294143889267811","title":"Unknown","description":"The top GO terms cover both organ morphogenesis (kidney tubule and lymph vessel development) and immune signaling (TLR pathways, inflammasome, cytokines) as well as embryonic axis specification, with no single cohesive function tying all terms together for these 21 proteins.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0072287","count":5},{"id":"GO:0072237","count":5},{"id":"GO:0036303","count":5},{"id":"GO:0034150","count":4},{"id":"GO:1904027","count":4}]},{"hash":"864842024436138063","title":"TLR/Cytokine Innate Immune Signaling","description":"The cluster is dominated by GO terms for toll-like receptor signaling (TLR1/6), lipopolysaccharide signaling, and cytokine-mediated signaling, along with NLRP3 inflammasome assembly and non-canonical NF-kappaB pathways, pointing to innate immune activation. A few terms touch development or tissue remodeling, but the primary theme is immune response and inflammatory signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":2},{"id":"GO:1904027","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0034130","count":2}]},{"hash":"744038424627090212","title":"Mitotic Cell Cycle and Vesicle Trafficking","description":"The GO terms show a clear emphasis on cell division and mitosis (cell division, mitotic sister chromatid cohesion, mitotic cell cycle) alongside membrane trafficking processes (retrograde Golgi-to-ER transport, COPII vesicle budding, endosome-to-Golgi transport) and ribosome biogenesis, suggesting a cohesive module of proteins involved in coordinating cell proliferation with protein production and intracellular transport.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007064","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0090114","count":2}]},{"hash":"721365691179914547","title":"TLR-Mediated Antiviral Innate Signaling","description":"This cluster centers on Toll-like receptor signaling pathways (TLR3/4/9/10), macrophage activation, dendritic cell cytokine regulation, and dsRNA-Driven interferon production, all classic features of an innate antiviral response. The combination of defense against virus, innate immunity, and multiple TLR signals strongly points to a coordinated antiviral innate signaling module.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0002730","count":6},{"id":"GO:0034162","count":6},{"id":"GO:0042116","count":6}]},{"hash":"688525736915317150","title":"Developmental Gene Expression and DNA Replication","description":"Top GO terms cluster around embryonic/organismal development (forebrain development, neural tube closure, skeletal system development, multicellular organism development) alongside core DNA-related activities (DNA replication, DNA-templated transcription, mitotic cell cycle). This suggests proteins coordinating developmental gene regulation with cell-cycle/DNA replication processes. Some apical stress/apoptotic signaling terms are present but secondary to the developmental and cell-cycle theme.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0007118","count":10},{"id":"GO:0070059","count":10},{"id":"GO:0001843","count":10}]},{"hash":"1930788724624772778","title":"Unknown","description":"The cluster shows a wide, heterogeneous mix of GO terms (platelet aggregation, retina homeostasis, actin patch localization, endocytosis regulation, ascospore wall assembly, calcium response, aging, growth) with several obsolete terms; there is no clear, shared function that ties most proteins together, so a single coherent label cannot be assigned.","confidence":"","size":20,"edges":184,"triangles":1047,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0070527","count":3},{"id":"GO:0043983","count":3},{"id":"GO:0051592","count":3},{"id":"GO:0051666","count":3}]},{"hash":"213204779488248895","title":"DNA Replication and Cell Cycle Regulation","description":"The proteins are enriched for DNA replication and cell cycle-related GO terms\u2014DNA replication, centrosome cycle, and positive regulation of nuclear cell cycle DNA replication\u2014pointing to genome duplication and cell-cycle control as the core theme. Some terms reflect development, membrane repair, and stress responses (SOS, nonsense-mediated decay), but these are secondary to the replication/cell cycle signal. Thus the cluster is best described by a replication-and-cell-cycle functional theme.","confidence":"High","size":20,"edges":34,"triangles":27,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0019079","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0007118","count":3},{"id":"GO:0010571","count":3}]},{"hash":"1557366547929345590","title":"Unknown","description":"No GO terms are listed, so I can\u2019t infer a shared function for these proteins. With only one edge and no triangles, there\u2019s no clear common theme to justify a specific label.","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"266109662701884414","title":"Nucleolar rRNA transcription by Pol I/III","description":"The top GO terms cluster around nucleolar transcription and ribosome biogenesis, especially rRNA transcription by RNA polymerases I and III, nucleolar rRNA transcription, and transcription initiation/preinitiation complexes; together these indicate a shared role in ribosome biogenesis in the nucleolus. Some terms about meristem regulation and X-ray response may reflect broader cellular stress or developmental regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009934","count":2},{"id":"GO:0010165","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1903357","count":1},{"id":"GO:0006359","count":1}]},{"hash":"396693516552305865","title":"Unknown","description":"The top GO terms show both DNA-templated transcription regulation and lysosome-related trafficking, but many other terms are unrelated (differentiation, necroptosis, deubiquitination) and there are no edges linking proteins, indicating no single coherent functional module for this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006622","count":2},{"id":"GO:0090160","count":2},{"id":"GO:0048235","count":1}]},{"hash":"831794614116009276","title":"Neural development and synapse assembly","description":"This cluster is dominated by GO terms related to brain development and synaptic organization, including corpus callosum development, positive regulation of synapse assembly, and behavioral responses to pain. While there are additional terms touching on immune responses and telomere maintenance, the strongest and most coherent signal is neural development and synapse formation. Confidence: Medium","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0070212","count":2},{"id":"GO:1904357","count":2},{"id":"GO:0061368","count":2},{"id":"GO:0070198","count":2}]},{"hash":"1936234463279475920","title":"Heart and cartilage development signaling","description":"The cluster centers on vertebrate development, especially cartilage condensation and heart development, with supportive terms for transcription regulation and signaling (DNA-templated transcription, JNK cascade regulation, phosphorylation). It also includes broader multicellular development and processes tied to remodeling (apoptotic cell clearance), and a highlighted but less central LPS response, which may reflect incidental or context-dependent signaling crosstalk. Overall, the theme is developmental signaling governing heart and cartilage formation.","confidence":"Medium","size":20,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0046329","count":2},{"id":"GO:0043277","count":2}]},{"hash":"182832620704124381","title":"Neural development and dendrite/axon morphogenesis","description":"This cluster is dominated by GO terms for nervous system development, axon extension, dendrite morphogenesis, and synaptic plasticity, pointing to neuronal differentiation and structural remodeling. A small subset includes mitotic cell cycle terms, but they are not the main theme, so the neuronal development signal is stronger overall.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045773","count":1},{"id":"GO:0030154","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0007091","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1421868440450000076","title":"Developmental Cell Cycle and Stress Response","description":"This cluster mixes DNA replication and mitotic checkpoint signals with ER unfolded protein response, ubiquitination, apoptosis, and signaling regulators (NF-kappaB, MAPK), plus gastrulation-related development terms, suggesting a broad link among cell cycle control, stress responses, and developmental processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0055113","count":1},{"id":"GO:0007095","count":1},{"id":"GO:0043407","count":1}]},{"hash":"227970808009091109","title":"Unknown","description":"The top GO terms are scattered across development (forebrain neuroblast division, organ identity) and diverse cellular processes (mitotic spindle orientation, centrosome maintenance, cytokinesis, GTPase regulation, secretory granule localization, and even sperm motility), with no single cohesive biological theme. This diversity prevents a specific, informative label beyond Unknown.","confidence":"","size":20,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":1},{"id":"GO:0048496","count":1},{"id":"GO:0021873","count":1},{"id":"GO:0031585","count":1},{"id":"GO:0032252","count":1}]},{"hash":"588389936013940380","title":"Innate immune signaling and necroptosis","description":"The top GO terms cluster around innate immune pathways (Toll and TLR9 signaling, defense against bacteria, dendritic cell cytokine regulation) and necroptosis-related processes, suggesting a protein group involved in immune signaling and inflammatory cell death. Some plant-development terms appear incidental noise, but the dominant theme is innate immunity and cell death signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901026","count":2},{"id":"GO:1990108","count":2},{"id":"GO:0007352","count":2},{"id":"GO:0008063","count":2},{"id":"GO:1902350","count":2}]},{"hash":"2191471048500818785","title":"Golgi nucleotide-sugar transporters","description":"This cluster is dominated by GO terms for importing nucleotide sugars into the Golgi lumen (GDP-fucose, UDP-glucose) and other transmembrane transport activities, pointing to a group of Golgi nucleotide-sugar transporters involved in supplying substrates for glycosylation. A few outlier terms (calcium export, root development) appear less central and may reflect broader transporter functions or annotation noise, but the strongest signal supports Golgi NST activity.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036085","count":3},{"id":"GO:0015786","count":3},{"id":"GO:1990034","count":2},{"id":"GO:0048527","count":2},{"id":"GO:1990536","count":2}]},{"hash":"2026976229628335999","title":"Cilia/Flagella motility and axoneme assembly","description":"The top terms mainly point to ciliary/flagellar function: sperm axoneme assembly, flagellated sperm motility, epithelial cilium movement, and regulation of axon extension, along with microtubule severing and polyglutamylation of tubulins. These collectively support a coherent theme of microtubule-based motility and axoneme assembly, with only a few metabolism-related terms that appear incidental. ","confidence":"High","size":20,"edges":16,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1903212","count":1},{"id":"GO:0090180","count":1},{"id":"GO:2001172","count":1},{"id":"GO:1905419","count":1},{"id":"GO:0051013","count":1}]},{"hash":"1117864514753800602","title":"Membrane Transport and Secretion","description":"The top GO terms point to transmembrane transport and secretion/export across membranes (xenobiotic, chloride, phospholipid, cysteine transport; oligopeptide and peptide pheromone export; bacteriocin secretion; type I secretion). Although some terms are context-specific (sperm capacitation), the overarching theme is membrane-associated transport and secretion, suggesting these proteins function in transporter or secretory pathways rather than a single substrate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":9},{"id":"GO:0006855","count":9},{"id":"GO:1902476","count":8},{"id":"GO:0043213","count":8},{"id":"GO:0030253","count":8}]},{"hash":"1677283887479386840","title":"cAMP/cGMP signaling and cell cycle control","description":"The Top Terms show cellular responses to cGMP and cAMP, plus TGF-beta stimulus and negative regulation of receptor guanylyl cyclase signaling, indicating second-messenger signaling. Additional terms include mitotic cell cycle, APC-dependent catabolic process, DNA-templated transcription, and histone methylation, suggesting a cluster that links signaling pathways to transcriptional regulation and cell-cycle control. Despite some obsolete terms, the common theme appears to be signaling via cAMP/cGMP that influences cell-cycle and transcriptional processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071321","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0010754","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0071320","count":2}]},{"hash":"707577480066588018","title":"TLR/NLR Innate Immune Signaling","description":"Proteins in this cluster are enriched for Toll-like receptor pathways (TLR2/4/9/10), NOD-like receptor signaling (NOD2), LPS and dsRNA responses, and macrophage/dendritic cell activation, pointing to a cohesive innate immune sensing and inflammatory signaling program in myeloid cells.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070431","count":3},{"id":"GO:0002730","count":3},{"id":"GO:0034162","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0034142","count":3}]},{"hash":"800899739034069008","title":"Unknown","description":"This cluster links a mix of signaling (Wnt, TLR), developmental (polarity in epithelia, imaginal disc), trafficking, and other regulatory processes, with no clear single function uniting all terms. As a result, there isn\u2019t a concise, representative label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904887","count":2},{"id":"GO:0034130","count":2},{"id":"GO:0071169","count":2},{"id":"GO:1903215","count":2},{"id":"GO:1903351","count":2}]},{"hash":"1257517635549284507","title":"Innate immune signaling and inflammatory responses","description":"The top GO terms cluster around sensing bacterial components (TLR signaling, lipopeptide detection, LPS pathways) and producing inflammatory signals (IL-8 production) with downstream STAT tyrosine phosphorylation, indicating innate immune and inflammatory signal transduction. Some terms relate to broader developmental signaling (Wnt, axis specification), but the dominant theme is immune-related signaling and cytokine responses.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051457","count":1},{"id":"GO:0042517","count":1},{"id":"GO:0042228","count":1},{"id":"GO:0007352","count":1},{"id":"GO:1904887","count":1}]},{"hash":"2137855425841904237","title":"Brassinosteroid-driven plant development","description":"The terms cluster around brassinosteroid signaling and broad plant development: detection of brassinosteroid stimulus, brassinosteroid mediated signaling, and various morphogenesis and organ specification processes (floral meristem, floral organ number, meristem organization, stomata, radial axis, phloem, lateral roots, secondary growth). This points to a cohesive module where brassinosteroid signaling broadly regulates growth and organ development across tissues. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009729","count":2},{"id":"GO:0010080","count":2},{"id":"GO:0048833","count":2},{"id":"GO:0009934","count":2},{"id":"GO:0010103","count":1}]},{"hash":"1730610202337171103","title":"Ribosome Biogenesis and Cell Division","description":"The cluster is dominated by GO terms for ribosome biogenesis, translation, initiation complex formation, and tRNA modification, all pointing to protein synthesis, paired with cell cycle and septum assembly terms, indicating a cohesive program for growth and division in cells. Some terms like conjugation and DNA transposition appear but seem incidental to the core theme.","confidence":"High","size":19,"edges":29,"triangles":13,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000747","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0007049","count":4}]},{"hash":"1319059780224528182","title":"Cell Division and Proliferation","description":"Based on the strongest signals in the Top Terms, the cluster is centered on cell division and proliferative regulation (positive regulation of cell population proliferation, mitotic cell cycle, cell division). Other GO terms (hypoxia response, mRNA transport, retina development, glucocorticoid response, cellulose catabolic process) appear as secondary or divergent annotations, suggesting a mixed or noisy set of functions rather than a single cohesive theme. The lack of network structure (Edges 0) also points to heterogeneity or annotation noise, so the label captures the core shared function with Moderate confidence.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0030245","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0071456","count":2}]},{"hash":"92735655883889958","title":"RNA splicing and mRNA processing regulation","description":"This cluster is dominated by GO terms tied to post-transcriptional RNA processing: regulation of translational initiation, splice site recognition, alternative splicing via the spliceosome, mRNA export from the nucleus, mRNA modification, and poly(A) tail regulation. Together they point to a cohesive role in RNA maturation and processing, with a minor developmental term (blastocyst formation) that may reflect specific contexts but not define the core function. ","confidence":"High","size":19,"edges":14,"triangles":7,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":4},{"id":"GO:0006376","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0006406","count":4},{"id":"GO:1902625","count":4}]},{"hash":"1936724866290927736","title":"Neural development and axon regeneration","description":"Based on prominent terms such as cerebellar cortex development, cell migration, and positive regulation of axon regeneration, along with modulation of Wnt signaling and apoptotic processes, the cluster appears to reflect neural development and nerve repair pathways. Some terms (angiogenesis, glucose metabolism, cadmium response) are present but seem secondary, not defining the core theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0090090","count":3}]},{"hash":"74388269132718915","title":"Amino acid metabolism and porphyrin/heme biosynthesis","description":"Many top GO terms point to amino acid catabolism (alanine, valine, tyrosine) and biosynthesis (alanine), while others reference porphyrin/heme production (protoporphyrinogen IX, heme). The shared theme across these terms is metabolic pathways centered on amino acid turnover and heme biosynthesis, with insulin signaling suggesting metabolic regulation. Confidence: High","confidence":"","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033512","count":8},{"id":"GO:0042853","count":8},{"id":"GO:0006571","count":7},{"id":"GO:0006782","count":7},{"id":"GO:0017000","count":6}]},{"hash":"2180189797309830577","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":60,"triangles":55,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1903883","count":4},{"id":"GO:0001519","count":4},{"id":"GO:2000637","count":4},{"id":"GO:0018032","count":4},{"id":"GO:1903265","count":4}]},{"hash":"1758245142937689286","title":"Golgi-Secretory Trafficking and Membrane Dynamics","description":"The top GO terms cluster around secretory granule localization, asymmetric Golgi ribbon formation, and membrane addition at cytokinesis, pointing to Golgi organization and secretory trafficking as a core theme. Additional terms involving spindle orientation, cell migration, and myofibril assembly reflect cytoskeletal remodeling and membrane trafficking required for morphogenesis and division, reinforcing a broader link to intracellular transport and membrane remodeling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0003094","count":2},{"id":"GO:0031585","count":2},{"id":"GO:0032252","count":2},{"id":"GO:0006930","count":2}]},{"hash":"1505027794694837135","title":"Developmental signaling and cell cycle control","description":"The cluster includes terms spanning tissue development (Schwann cell development, heart development, Bergmann glial differentiation) and neuronal signaling (excitatory postsynaptic potential, response to muscle activity), along with core cell-cycle regulation (kinetochore localization, negative regulation of cyclin-dependent kinase activity, negative regulation of cell proliferation). This points to a broad theme of developmental signaling intertwined with cell-cycle control across multiple tissues rather than a single, specific pathway.","confidence":"Medium","size":19,"edges":142,"triangles":582,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":14},{"id":"GO:0045736","count":13},{"id":"GO:0008286","count":13},{"id":"GO:2001275","count":13},{"id":"GO:0014044","count":12}]},{"hash":"1170761853564805023","title":"Muscle and nerve development with synaptic activity","description":"The cluster centers on muscle formation (myoblast fusion, muscle activity response, angiogenesis) and neural/nerve development (Schwann cell development, axonogenesis, synaptic potentiation), suggesting a coordinated program of muscle-nerve maturation and activity-dependent connectivity; proliferative cell-cycle terms may reflect developmental context. ","confidence":"High","size":19,"edges":40,"triangles":24,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":18},{"id":"GO:0007520","count":17},{"id":"GO:0014044","count":17},{"id":"GO:0043065","count":17},{"id":"GO:0007121","count":17}]},{"hash":"1893241305721033303","title":"ECM remodeling and morphogenesis","description":"This cluster is dominated by collagen catabolic process, basement membrane disassembly, and epithelial tube branching in lung morphogenesis, as well as decidualization, all of which point to extracellular matrix remodeling driving tissue morphogenesis and development. Supporting terms like cellular response to thyroid hormone and neuropeptide catabolic process suggest regulatory contexts, but the core signal remains ECM remodeling and developmental morphogenesis. Medium","confidence":"","size":19,"edges":164,"triangles":855,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":8},{"id":"GO:0010813","count":8},{"id":"GO:0030574","count":8},{"id":"GO:0097067","count":8},{"id":"GO:0001913","count":8}]},{"hash":"1487063777726013079","title":"Diverse Substrate Membrane Transport","description":"The cluster\u2019s GO terms are dominated by transmembrane transport activities for a range of substrates (nitrate, phosphate, vitamins, arabinose, galactose, xenobiotics), plus related processes like neurotransmitter loading into vesicles, which collectively point to a group of proteins involved in moving diverse substances across membranes. An outlier term on poly(A) tail shortening (nuclear mRNA processing) is less cohesive with the transport theme, so the main signal remains membrane transport of various substrates. ","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":2},{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0006855","count":1}]},{"hash":"579416137593582737","title":"TLR/NLR Innate Immune Signaling","description":"The cluster shows multiple GO terms tied to Toll-like receptor pathways (TLR6, TLR1), lipopolysaccharide signaling, cytokine signaling, and NLRP3 inflammasome assembly, as well as non-canonical NF-kB activation. This strongly indicates an innate immune response to bacterial components and downstream inflammatory signaling, with only a few outliers related to collagen, axis specification, or cortisol that may reflect broader regulatory roles. Overall, the dominant theme is TLR/NLR-driven innate immunity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":2},{"id":"GO:1904027","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0034130","count":2}]},{"hash":"1244194723828502880","title":"Unknown","description":"This set of GO terms spans immune signaling (TLR1, LPS, IL-8), muscle/sarcomere organization, dopamine response, Wnt signaling, and even kidney size and defecation rhythm, with no clear, unified function tying all proteins together.","confidence":"","size":19,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0042228","count":1},{"id":"GO:1904887","count":1},{"id":"GO:0034130","count":1}]},{"hash":"1230489148396060409","title":"RNA polymerase assembly and transcription elongation","description":"This cluster is dominated by GO terms for assembling RNA polymerase I/II/III complexes (I/II/III assembly) and for regulation of transcription elongation by RNA polymerase II, with a couple of general assembly terms (tubulin complex, protein folding) suggesting broader macromolecular assembly processes. The recurring RNA polymerase assembly terms indicate a focus on the components and processes involved in assembling transcription machinery.","confidence":"High","size":19,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1990113","count":1},{"id":"GO:0031137","count":1},{"id":"GO:1990115","count":1},{"id":"GO:1990114","count":1},{"id":"GO:0007021","count":1}]},{"hash":"893312969817000036","title":"Translation Initiation and tRNA Maturation","description":"The cluster is dominated by GO terms tied to translation initiation (translation reinitiation; formation of translation preinitiation complex) and tRNA processing/methylation, suggesting a functional grouping around protein synthesis and tRNA maturation. Other terms (spermatogenesis, cholesterol biosynthetic process, hemopoiesis, actin nucleation regulation, DNA repair, aging) are lower-frequency and may reflect multifunctional proteins or annotation noise; overall translation-related signals define the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0030488","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0008033","count":1}]},{"hash":"907116279729207947","title":"Unknown","description":"This cluster lists GO terms from nuclear transport (NLS-bearing protein import into nucleus, mRNA transport) and protein complex assembly, but also diverse metabolic pathways (thyroid hormone metabolism, pentose biosynthesis, valine biosynthesis). The terms do not converge on a single clear function or pathway, making a cohesive, high-confidence label difficult to assign.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0006461","count":2}]},{"hash":"324862193013512769","title":"Placental vascular development and GPCR signaling regulation","description":"These proteins cluster around placenta-related development and vascular formation (maternal placenta development; labyrinthine layer blood vessel development), supported by signals like VEGF and prostaglandin responses. They also show regulatory signaling features (desensitization of GPCR signaling; NFAT pathway modulation) that can operate during placental remodeling and immune interactions. While most terms point to placenta/vascular development, some reflect broader immune or signaling contexts, suggesting a focused theme with some shared background processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0098761","count":3}]},{"hash":"731812411955323948","title":"Innate Immune Activation and Antiviral Response","description":"This cluster is strongly enriched for innate immune terms: innate immune response, inflammatory response, LPS/TLR4 signaling, and response to virus, along with TNF production. The combination points to a cohesive theme of innate immunity and antiviral/inflammatory signaling, with a minor presence of Notch-related differentiation terms that are less central to the main function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0045071","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0006954","count":2}]},{"hash":"474056663977955849","title":"Multisystem Development and Morphogenesis","description":"The terms span immune organ development (thymus/T cell differentiation), endocrine/thyroid function (thyroid development and iodide transport), digestive tract morphogenesis, neural development (axon guidance, synapse assembly, synaptic plasticity), angiogenesis, and urogenital development, plus apoptosis. This broad mix points to a general developmental/morphogenetic theme across multiple tissues rather than a single pathway, justifying a high-level label. Given the diversity and sparse term counts, the connection is plausible but not tightly cohesive, so confidence is Medium. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033081","count":1},{"id":"GO:0006915","count":1},{"id":"GO:0015705","count":1},{"id":"GO:0030878","count":1},{"id":"GO:0048546","count":1}]},{"hash":"553799077925926946","title":"T cell differentiation and germinal center regulation","description":"Top GO terms are dominated by immune-related processes involving T cells and germinal center biology, including T cell homeostasis, T follicular helper cell differentiation, lymph node development, and regulation of germinal center formation. Signaling pathways such as the p38 MAPK cascade and responses to glucocorticoids and fibroblast growth factor also feature, pointing to coordinated immune signaling and stress response in T cell\u2013mediated immunity. A few terms about cytoplasmic translation and mRNA decay are general cellular processes that may reflect housekeeping expression in these immune cells. Overall, the cluster seems to reflect a theme of T cell\u2013driven immune regulation and germinal center dynamics rather than a single enzymatic pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0043029","count":1},{"id":"GO:0048535","count":1},{"id":"GO:0038066","count":1},{"id":"GO:0031086","count":1}]},{"hash":"167214232240965669","title":"Mitotic Regulation and Ubiquitin Pathways","description":"The top GO terms are dominated by mitosis-related processes (mitotic cell cycle, mitotic sister chromatid segregation, APC-dependent catabolic process) and ubiquitin-related pathways (K11-linked ubiquitination, ubiquitin-dependent ERAD). While there are broader development terms present (skin development, multicellular organism development), the core signal points to cell-cycle control coupled with ubiquitin-mediated protein turnover, suggesting a cluster of proteins involved in coordinating division with protein quality control.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1474011974011305695","title":"Membrane Ion Transport and Homeostasis","description":"The top GO terms are mainly about ion movement across membranes (cadmium and zinc transport; potassium import/export; sodium export) and intracellular ion homeostasis. A few biosynthetic terms appear as less-represented outliers, but the strongest signal is membrane-associated ion transport, justifying this label.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009103","count":4},{"id":"GO:0070574","count":3},{"id":"GO:0071577","count":3},{"id":"GO:0030199","count":3}]},{"hash":"8271704229729220","title":"Endocytosis and Protein Turnover with Iron Homeostasis","description":"The top GO terms cluster around intracellular trafficking and degradation, including receptor-mediated endocytosis, receptor internalization, and vacuolar/protein catabolic processes (ERAD-related). A subset also involves iron transport and homeostasis, suggesting a linked theme of processing and turnover of proteins within endomembrane pathways coupled to iron handling. One term about floral meristem growth appears as a minor outlier, but the dominant pattern supports endocytosis and protein turnover with iron management.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010080","count":2},{"id":"GO:0042135","count":1},{"id":"GO:0006898","count":1},{"id":"GO:0007039","count":1},{"id":"GO:1904382","count":1}]},{"hash":"673957239383201997","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036085","count":1},{"id":"GO:0034221","count":1},{"id":"GO:0015786","count":1},{"id":"GO:1990569","count":1},{"id":"GO:0072334","count":1}]},{"hash":"866626528329984918","title":"Cannabinoid biosynthesis precursors","description":"The top GO terms point to olivetolic acid and cannabinoid biosynthesis, suggesting the cluster centers on cannabinoid production pathways. Other terms (insect cuticle development, glycosylation) appear incidental, and there are no edges among proteins, indicating weak functional cohesion. Thus the label reflects the dominant signal but with low confidence.","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901697","count":1},{"id":"GO:1901696","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0097370","count":1}]},{"hash":"1049378910945927402","title":"Deubiquitination-Driven Cell Cycle Regulation","description":"This cluster centers on protein deubiquitination (K63- and K33-linked) and cell-cycle\u2013related processes: G0 to G1 transition, DNA damage response with potential cell cycle arrest, and inhibition of apoptosis. While a couple of terms pertain to heart development and chloroplast mRNA modification, the core shared theme is how deubiquitinating activity modulates protein turnover to influence cell cycle progression and cell survival.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":1},{"id":"GO:0070536","count":1},{"id":"GO:0003283","count":1},{"id":"GO:0071947","count":1},{"id":"GO:0003203","count":1}]},{"hash":"281640998596735239","title":"Vitamin and phospholipid metabolism","description":"The cluster\u2019s GO terms cluster around vitamin transport/metabolism (vitamin E metabolic process, vitamin transport) and regulation of phospholipid biosynthesis (phosphatidylcholine and phosphatidylglycerol), suggesting a membrane lipid and vitamin metabolic theme. Some terms are peripheral (placenta development, blood-brain barrier establishment), but the strongest signal is lipid/vitamin metabolism.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046909","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0042360","count":1},{"id":"GO:2001247","count":1},{"id":"GO:0009636","count":1}]},{"hash":"2214412464695195026","title":"Steroid and lipid biosynthesis with pigment production","description":"This cluster is dominated by GO terms for steroid biosynthesis (glucocorticoid, C21-steroid hormone, testosterone), lipid metabolism (very long-chain fatty acids), and pigment-related biosynthesis (melanin) as well as retinoid metabolism, indicating a cohesive theme around steroid/lipid biosynthesis and pigment production. A few unrelated stress-response terms (e.g., response to antibiotic) are present but do not override the main signal.","confidence":"Medium","size":18,"edges":52,"triangles":55,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":12},{"id":"GO:0030148","count":11},{"id":"GO:0042572","count":11},{"id":"GO:0042438","count":11},{"id":"GO:0006704","count":11}]},{"hash":"1267262440497917269","title":"Unknown","description":"The annotations include viral replication and host interactions (viral life cycle, host-mediated activation of viral genome replication, uncoating of virus), RNA-templated DNA biosynthesis, and several unrelated terms (lipid droplet organization, sepal formation, UV-A response, protein folding, symbiont entry into host), indicating a highly heterogeneous set with no single cohesive function. Therefore this cluster is labeled Unknown with None confidence. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034389","count":2},{"id":"GO:0071492","count":1},{"id":"GO:0019061","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0048453","count":1}]},{"hash":"659215004465591675","title":"Neurodevelopment and Synaptic Signaling","description":"The cluster centers on neural development and neuronal signaling, with terms like nervous system development, interneuron migration, Wnt signalosome and Smoothened signaling, and regulation of glutamatergic transmission, plus dopamine response. While there are a few broader or non-neural terms (kidney development, ER stress, mitochondrial membrane organization), the dominant themes point to brain development and synaptic function, making this label representative of the group\u2019s core function.","confidence":"Medium","size":18,"edges":38,"triangles":16,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007224","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0034976","count":6},{"id":"GO:1904887","count":6}]},{"hash":"395434265060276303","title":"Post-transcriptional RNA processing and translation control","description":"This cluster centers on RNA processing steps\u2014splicing (splice site recognition, spliceosome regulation), mRNA export, and mRNA modification\u2014along with regulation of translation initiation, indicating a cohesive role in post-transcriptional gene expression control. A few terms (developmental processes) may reflect broader annotations or incidental associations but do not define the core function.","confidence":"Medium","size":18,"edges":13,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0006376","count":2}]},{"hash":"1517963148646302647","title":"Ribosome biogenesis and translation control","description":"The cluster is dominated by RNA/tRNA modification and translation-related terms: maturation of SSU-rRNA, tRNA wobble uridine modification, translation, and regulation of translation, pointing to a core theme of ribosome assembly and control of protein synthesis. Some biosynthetic process terms appear (biotin and antibiotic biosynthesis) as possible outliers and do not align with the primary RNA/translation signals, but the strongest signal is RNA processing and the translation machinery.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0006378","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0033119","count":1}]},{"hash":"1898764687782106778","title":"Ubiquitin-dependent antiviral innate immunity","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic process and innate antiviral responses (defense response to virus, innate immune response), plus protein autoubiquitination, suggesting a core theme of ubiquitin-proteasome\u2013mediated regulation of antiviral defense and apoptosis in these proteins. Some terms (histone catabolic process, vitamin D response, voltage-gated channel regulation) appear less central or contextually separate, but do not override the main ubiquitin- and antiviral-immune pattern.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0070512","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1359751620895505218","title":"Steroid and lipid biosynthesis with xenobiotic response","description":"The cluster\u2019s GO terms are dominated by steroid and lipid metabolism (glucocorticoid, C21-steroid, retinol, sphingolipid, melanin biosynthesis) along with responses to xenobiotics and antibiotics, suggesting a metabolic module focused on lipid/steroid biosynthesis coupled with detoxification. Despite zero edges, the recurring theme across terms supports this label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0006355","count":6},{"id":"GO:0046677","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0042493","count":4}]},{"hash":"1861044456454067396","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0035735","count":2},{"id":"GO:0006610","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001680","count":1}]},{"hash":"78620383224225644","title":"Developmental signaling and morphogenesis","description":"The top GO terms cluster around cellular responses and regulation of development\u2014TGF-beta signaling, Wnt pathway regulation, transcriptional control, stem cell maintenance, and morphogenesis. This points to a cohesive theme of developmental signaling and tissue morphogenesis, with a few outlier terms likely reflecting annotation noise (outer membrane assembly, methanol oxidation, nonribosomal peptide biosynthesis). Overall, the cluster appears to reflect signaling-driven developmental processes rather than a single metabolic or structural function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043165","count":1},{"id":"GO:0015946","count":1},{"id":"GO:0051205","count":1}]},{"hash":"113542638590152999","title":"Developmental signaling and cell cycle regulation","description":"The cluster is enriched for developmental processes (skin development, multicellular organism development) and cell proliferation signals (mitotic cell cycle, positive regulation of cell population proliferation), together with regulatory signaling (positive regulation of GTPase activity, protein autophosphorylation, serine/threonine kinase activity) and transcription/RNA transport, suggesting a group coordinating development, growth, and gene regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0031954","count":4}]},{"hash":"1592140980049254350","title":"Exocytosis and Ion Transport","description":"The top GO terms are dominated by vesicle-mediated secretion and exocytosis (exosomal secretion, vesicle docking, exocytosis) along with membrane potential/ion transport (potassium ion transport, membrane hyperpolarization). A couple of terms like DNA repair and Schwann cell development are less connected to this theme, but the strongest signals point to secretory vesicle processes and ion-channel\u2013related functions, suggesting a cluster of membrane trafficking and excitability components.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1990182","count":3},{"id":"GO:0048240","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0098849","count":3},{"id":"GO:0071805","count":3}]},{"hash":"273176397170132624","title":"Ubiquitin-dependent autophagy regulation","description":"This cluster centers on ubiquitination and deubiquitination (including K48, K63, and K6 linkages) and autophagy-related trafficking such as pexophagy, the Cvt pathway, and localization to the phagophore assembly site. The GO terms point to a cohesive theme where ubiquitin turnover controls autophagy and related protein degradation, with some entries also affecting signaling pathways via deubiquitination. Overall, the dominant theme is clearly ubiquitin-driven regulation of autophagy.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0030242","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0034497","count":1},{"id":"GO:0071108","count":1}]},{"hash":"1752729419630349728","title":"Ubiquitin-regulated TNF-NF-kappaB-JNK signaling","description":"Top GO terms cluster around ubiquitination processes and TNF/NF-kappaB/JNK signaling, indicating a module where ubiquitin tagging modulates inflammatory signaling and related growth processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0070534","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0016049","count":3}]},{"hash":"169612734192825486","title":"Rho GTPase Regulated Vesicle Trafficking","description":"The top GO terms point to a theme of Rho GTPase signaling and vesicle dynamics, including regulation of Rho protein signal transduction, GTPase activity, synaptic vesicle maturation, and neurotransmitter secretion, complemented by intracellular protein transport and ribophagy. Some terms about pollen sperm and brown fat differentiation appear less connected, but the strongest signals reflect GTPase-regulated vesicle trafficking and neuronal signaling, with broader cellular maintenance processes.","confidence":"Medium","size":18,"edges":124,"triangles":482,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0048235","count":2},{"id":"GO:0040015","count":2},{"id":"GO:0050873","count":2}]},{"hash":"179694276367152986","title":"Rho/Rac Cytoskeletal Signaling","description":"The cluster is dominated by GO terms for regulation of Rho and Rac signaling and related cytoskeletal processes (cell adhesion, phagocytosis, vesicle trafficking, and endocytosis), suggesting a shared theme of actin cytoskeleton remodeling and adhesion dynamics. Some terms (sensory perception, retinal apoptosis) are less clearly connected but do not override the core cytoskeletal signaling signal.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0007605","count":1},{"id":"GO:0016042","count":1},{"id":"GO:0035020","count":1},{"id":"GO:0033633","count":1}]},{"hash":"1622963983551346953","title":"Diverse Substrate Transmembrane Transporters","description":"The predominant GO terms describe transport of various substrates across membranes (nitrate, vitamins, sugars, phosphate, sialic acid, xenobiotics) and a vesicle loading process, indicating the cluster groups membrane transport proteins with broad substrate specificity rather than a single pathway.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015751","count":1}]},{"hash":"1048962374365672075","title":"Unknown","description":"The top GO terms span integrin and B cell receptor signaling, lamellipodium assembly, microtubule anchoring, and basic processes like DNA replication and cholesterol biosynthesis, with no single theme connecting all proteins. Thus a cohesive functional label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0008285","count":2}]},{"hash":"2045050175801309176","title":"Amino acid transport across plasma membrane","description":"The top GO terms are dominated by transmembrane transport of amino acids into the cell (arginine, lysine, methionine, etc.) across the plasma membrane, with related terms for cell volume homeostasis, suggesting a core function in amino acid uptake and osmoregulation at the membrane.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071477","count":1},{"id":"GO:0035826","count":1},{"id":"GO:0006527","count":1},{"id":"GO:1902274","count":1},{"id":"GO:0097639","count":1}]},{"hash":"1617188142188088894","title":"Chromatin Regulation in Development","description":"The cluster centers on nuclear/chromatin processes (transcriptional regulation by RNA Pol II, CENP-A chromatin assembly, histone H3 acetylation, nucleus organization) and development-related terms (brain development, osteoblast differentiation, male gonad development, multicellular growth, fertilization), suggesting proteins involved in chromatin dynamics that guide development. A few terms like defense response to Gram-positive bacteria appear less connected and may reflect pleiotropy or annotation overlap.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043966","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0007338","count":2}]},{"hash":"2239174519454623206","title":"Nuclear RNP Assembly and Egg Activation","description":"The cluster is enriched for nuclear RNA-related processes: box H/ACA snoRNP assembly, negative regulation of rRNA processing, and telomerase RNA localization to Cajal bodies, along with developmental events such as female/male pronucleus assembly and egg activation. While neuron development appears as an outlier, the prominent theme centers on nuclear RNP biogenesis/processing and early embryonic activation, making this a cohesive label for the core functions represented.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":2},{"id":"GO:2000233","count":1},{"id":"GO:0000493","count":1},{"id":"GO:1904874","count":1},{"id":"GO:0043087","count":1}]},{"hash":"2130087181734303809","title":"Unknown","description":"The GO terms span diverse processes (Golgi-to-lysosome transport, Rho signaling, ion transport, AV-node action potential, endothelial delamination, cAMP response, outflow tract morphogenesis, neural synaptic depression, and cortisol biosynthesis) with no single shared function, so there isn't a coherent theme to name the cluster.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090160","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0034767","count":1},{"id":"GO:0086045","count":1},{"id":"GO:0071642","count":1}]},{"hash":"1073246129685446638","title":"Membrane trafficking and cytoskeletal assembly","description":"Top GO terms indicate endomembrane organization, protein localization to the plasma membrane, phosphatidylinositol lipid biosynthesis, and cytoskeletal/membrane remodeling processes such as ruffle and focal adhesion assembly, plus autophagosome assembly. These collectively point to a theme of membrane dynamics and cytoskeletal organization, with some terms (e.g., megakaryocyte and myelin assembly) being more specialized but still related to membrane structures. Therefore, the cluster is best described as membrane trafficking and cytoskeletal assembly.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046854","count":1},{"id":"GO:0031321","count":1},{"id":"GO:0042070","count":1},{"id":"GO:0010256","count":1},{"id":"GO:0072661","count":1}]},{"hash":"400649412059245582","title":"Unknown","description":"The top GO terms are diverse, including menaquinone and phylloquinone biosynthesis, cell wall organization, multiple catabolic processes, and methionyl-tRNA aminoacylation. There is no single coherent function linking these terms, and the cluster has no edges to indicate a shared pathway, so a meaningful, specific label cannot be assigned. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0042372","count":1},{"id":"GO:0009063","count":1},{"id":"GO:0019553","count":1}]},{"hash":"864330610233005081","title":"Ribosome Biogenesis and Translation","description":"This cluster is centered on ribosome biogenesis and function, with GO terms for ribosome assembly, maturation/export of ribosomal subunits, and key translation steps (initiation and termination), plus ribosome disassembly. The dominant theme is ribosome production and protein synthesis machinery; the additional endoribonuclease regulation term is minor and does not alter the overall interpretation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006413","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0060702","count":1}]},{"hash":"39374200687165821","title":"RNA Processing and Transcription Regulation","description":"Most terms cluster around RNA metabolism and transcription control: DNA-templated transcription, transcription antitermination, pre-miRNA processing, miRNA catabolic process, and maturation of SSU-rRNA. These points together to a coherent RNA-processing/transcription cluster, with a few outliers (kidney development-related and osmotic-stress signaling) that don't define the group. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060567","count":1},{"id":"GO:0070934","count":1},{"id":"GO:1901724","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1902219","count":1}]},{"hash":"1138760936768287533","title":"Fungal cell wall biosynthesis and stress response","description":"This cluster centers on fungal-type beta-glucan biosynthesis, indicating cell wall synthesis, accompanied by stress-related signaling such as cellular response to cAMP and unfolded protein response, plus a karyogamy term suggesting mating-related processes in fungi. Additional terms like iron-sulfur cluster assembly and membrane targeting reflect broader cellular maintenance during growth and stress. Overall, the theme links fungal cell wall construction with stress and mating-related pathways, though some terms are general. ","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070880","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0000742","count":1},{"id":"GO:0016226","count":1},{"id":"GO:0070389","count":1}]},{"hash":"1138053198244168598","title":"Signaling Pathway Regulation","description":"The cluster shows GO terms centered on modulating signaling pathways (negative regulation of VEGF signaling, positive regulation of STAT tyrosine phosphorylation, and positive regulation of the p38 MAPK cascade), suggesting a focus on signal transduction modulation. Other terms are more diverse (nuclear protein localization, various metabolic processes, and plant-specific abscisic acid biosynthesis), indicating heterogeneity. Overall, the strongest shared theme is regulation of signaling, leading to a medium confidence label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900747","count":2},{"id":"GO:0051457","count":1},{"id":"GO:0042517","count":1},{"id":"GO:0006124","count":1},{"id":"GO:1900745","count":1}]},{"hash":"1383592371232950891","title":"TLR-Mediated Innate Immune Signaling","description":"The cluster is dominated by GO terms for Toll-like receptor signaling (TLR3, TLR10, MyD88-dependent) and downstream inflammatory and interferon-\u03b2 responses, plus chemokine and dendritic cell cytokine regulation, indicating a cohesive innate immune signaling module. A single bone development term likely reflects noise rather than a functional link.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":2},{"id":"GO:0034166","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0034138","count":2},{"id":"GO:0060348","count":2}]},{"hash":"560711158733772616","title":"EMT and adhesion signaling cluster","description":"This cluster is dominated by terms related to epithelial-to-mesenchymal transition, cell\u2013cell adhesion, and integrin/cytoskeletal signaling, with hints of locomotion and actomyosin remodeling. While proteolysis and glycogen metabolism appear among the terms, the core theme centers on EMT-related adhesion and cytoskeletal regulation, suggesting a cohesive functional group around cell adhesion dynamics during phenotype switching.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001837","count":2},{"id":"GO:0006508","count":2},{"id":"GO:2001046","count":2},{"id":"GO:2000324","count":1},{"id":"GO:0031987","count":1}]},{"hash":"1963835859917387416","title":"Neural and retinal development","description":"The top GO terms are dominated by neural and eye-related processes\u2014photoreceptor differentiation, retina morphogenesis, peripheral nervous system development, dendrite regulation, and synapse organization\u2014along with BMP signaling regulation, all pointing to neural/eye development. There are a couple of outliers (chitin catabolic process, vagina development) that seem unrelated, suggesting some annotation noise, but the core signal supports a neural/retinal development theme. ","confidence":"Medium","size":18,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":2},{"id":"GO:0001751","count":1},{"id":"GO:1904238","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0060060","count":1}]},{"hash":"2036881793678030365","title":"TOR signaling and lysosome localization","description":"Among the terms, there are clear signals for TOR pathway activity (GO:0032008) and lysosome involvement (GO:0061462) and amino acid\u2013responsive regulation (GO:0071230). These points suggest a cluster centered on nutrient sensing and TOR pathway regulation, with some unrelated terms likely representing noise. Therefore, a TOR-nutrient sensing label fits best, with medium confidence given partial noise.","confidence":"Medium","size":18,"edges":25,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0000186","count":1},{"id":"GO:0061462","count":1},{"id":"GO:0032008","count":1},{"id":"GO:0071230","count":1}]},{"hash":"1557009147192765949","title":"Ubiquitin Deubiquitination Enzymes (DUBs)","description":"This cluster centers on deubiquitination across multiple ubiquitin linkages (K6, K29, K48, K63) and related pathways such as ERAD and RIPoptosome/necroptosis, pointing to a group of deubiquitinases and ubiquitin-signaling regulators.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901026","count":2},{"id":"GO:1904378","count":2},{"id":"GO:0044313","count":2},{"id":"GO:1990108","count":2},{"id":"GO:0035523","count":2}]},{"hash":"85639921945239596","title":"Neural development and synaptic signaling","description":"The top terms point to nervous system processes (neural tube development, neuromuscular junction development) and regulation of neurotransmitter receptor activity, with supporting membrane/ signaling roles (GPI anchor biosynthesis, inositol phosphate metabolism, protein prenylation). This suggests a cluster of proteins involved in neural development and synaptic signaling rather than a single metabolic pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097421","count":2},{"id":"GO:0006506","count":1},{"id":"GO:0032957","count":1},{"id":"GO:0010264","count":1},{"id":"GO:0052746","count":1}]},{"hash":"139425659826491836","title":"Oxidative Stress Response","description":"The top GO terms show a core around reactive oxygen species and stress responses\u2014hydrogen peroxide biosynthesis, respiratory burst, and oxidative stress\u2013induced apoptotic signaling\u2014together with cellular stress response to acidic pH. Several other terms are unrelated to ROS, indicating the cluster is functionally diverse, but the ROS-related terms provide a defensible core theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050665","count":2},{"id":"GO:1904845","count":1},{"id":"GO:1902177","count":1},{"id":"GO:0008365","count":1},{"id":"GO:0045453","count":1}]},{"hash":"1607036445723730110","title":"Genome maintenance and transcription regulation","description":"The cluster is enriched for DNA replication, transcription-coupled nucleotide-excision repair, SOS response, and transcription termination, indicating a core theme of genome maintenance and control of transcription. Peripheral terms such as lipid droplet organization and embryonic cranial skeleton morphogenesis appear less connected to this core function, suggesting they may reflect broader or incidental roles in the dataset.","confidence":"Medium","size":17,"edges":112,"triangles":407,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0019079","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0006283","count":3},{"id":"GO:0048701","count":3}]},{"hash":"37838101397230950","title":"Calcium signaling and metal ion transport","description":"This cluster is driven by calcium ion handling (intracellular Ca2+ homeostasis, ER Ca2+ concentration, Ca2+-dependent exocytosis, Golgi Ca2+ release) and metal ion transport (zinc and cadmium), with some unrelated LPS biosynthesis annotations. The common theme appears to be calcium signaling and metal transport.","confidence":"Medium","size":17,"edges":23,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":9},{"id":"GO:0070574","count":6},{"id":"GO:0016311","count":6},{"id":"GO:0071577","count":6},{"id":"GO:1901205","count":5}]},{"hash":"955245001143433436","title":"Synaptic Vesicle Trafficking and MAPK Signaling","description":"The cluster centers on synaptic function (regulation of exocytosis and excitatory postsynaptic potentials) and intracellular signaling, with supporting terms for Golgi-ER transport, ubiquitination, GTPase regulation, and ERK1/ERK2 cascade. This pattern suggests coordinated control of neuronal vesicle trafficking and signaling pathways, modulated by post-translational modification and cytoskeletal dynamics.","confidence":"Medium","size":17,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0033138","count":2},{"id":"GO:2000300","count":2}]},{"hash":"1091933027308179088","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051232","count":2},{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0006277","count":1},{"id":"GO:0001302","count":1}]},{"hash":"821683034088734323","title":"Mitochondrial translation and respiratory complex assembly","description":"The top terms are dominated by mitochondrial tRNA aminoacylation and translation, along with mitochondrial respiratory chain complex assembly, pointing to a core function in mitochondrial protein synthesis and assembly of the respiratory machinery. A few nuclear transcription-related terms and angiogenesis/vasculogenesis terms appear but do not define the cluster's main theme, which is centered on mitochondrial gene expression and energy production.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070183","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0001570","count":1},{"id":"GO:0070184","count":1}]},{"hash":"1963173913789323695","title":"Oxidative Stress Response and Protein Quality Control","description":"This cluster centers on oxidative stress response and redox homeostasis, plus proteostasis via ubiquitin-proteasome\u2013mediated degradation (cytoplasmic QC and ERAD-related processes). The linked GO terms point to how cells manage oxidative damage and misfolded proteins, including ER-to-cytosol transport and ribosome-associated degradation, forming a coherent stress-response/proteostasis module.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0071712","count":1},{"id":"GO:0030970","count":1}]},{"hash":"1425041191790665866","title":"ERAD and ER-Golgi trafficking","description":"The top GO terms cluster around the ubiquitin-dependent ERAD pathway, COPII vesicle budding, and retrograde transport from Golgi to ER, suggesting a shared focus on ER quality control and protein trafficking between the ER and Golgi. Other terms (RNA processing, forebrain development) appear incidental, but the strongest signal points to ER-associated degradation and trafficking roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0006890","count":1}]},{"hash":"731310795301534497","title":"Genome maintenance and RNA processing","description":"The cluster is enriched for DNA replication and repair-related terms (DNA replication, DNA unwinding, DNA recombination, SOS response), indicating genome maintenance roles, while also showing strong RNA processing signals (nonsense-mediated decay, mRNA splicing via spliceosome, spliceosomal changes, ribosome assembly, rRNA catabolic process), suggesting involvement in RNA processing and ribosome biogenesis. Together these imply a group of proteins contributing to both genome integrity and RNA metabolism. ","confidence":"Medium","size":17,"edges":86,"triangles":181,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0000184","count":4},{"id":"GO:0009432","count":4},{"id":"GO:0000742","count":4}]},{"hash":"427920187753754264","title":"Neural Forebrain and Visual System Development","description":"The cluster shows strong enrichment for developmental processes, especially forebrain development, neural tube closure, and visual perception, suggesting a role in brain and eye formation. Additional terms like skeletal system development and multicellular organism development indicate broader embryonic growth programs, while DNA-templated transcription and mitotic cell cycle point to dynamic gene regulation and cell proliferation during development. The presence of stress-related apoptotic signaling and cadmium response hints at remodeling during development, but the dominant theme is neural/visual system development.","confidence":"High","size":17,"edges":90,"triangles":352,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":15},{"id":"GO:0070059","count":14},{"id":"GO:0001843","count":14},{"id":"GO:0001501","count":14},{"id":"GO:0007275","count":14}]},{"hash":"532721738020624631","title":"Actin cytoskeleton remodeling and cell polarity","description":"A cluster name reflecting frequent GO terms for actin-driven structures and processes (lamellipodium morphogenesis, podosome assembly, cleavage furrow formation) and polarity-related control of cell shape. While some terms are related to other processes, the dominant signal is cytoskeletal dynamics and polarity regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060378","count":1},{"id":"GO:0072673","count":1},{"id":"GO:0006654","count":1},{"id":"GO:0071800","count":1},{"id":"GO:0048310","count":1}]},{"hash":"1434017935872052826","title":"Translation initiation and RNA processing","description":"The cluster is dominated by GO terms for translation initiation (reinitiation, preinitiation complex formation, regulation of initiation) and RNA processing (splicing via spliceosome, splice site recognition, polyadenylation), with indications of viral translation initiation mechanisms (IRES-dependent). This suggests a cohesive set of proteins involved in initiating translation and processing/handling mRNA, rather than a single narrow function. The blastocyst formation term is less central but may reflect developmental translation/splicing regulation. Overall, a label focusing on translation initiation plus RNA processing fits best.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":11},{"id":"GO:0001731","count":11},{"id":"GO:0006446","count":8},{"id":"GO:1901407","count":8},{"id":"GO:0045292","count":8}]},{"hash":"250962815449622737","title":"Potassium transport and membrane potential regulation","description":"The top GO terms cluster around potassium ion transmembrane transport, intracellular potassium ion homeostasis, and multiple aspects of membrane potential maintenance and regulation (stabilization, resting potential, import/export, and repolarization in cardiac tissue). This suggests a cohesive function in managing cellular excitability via potassium flux, with magnesium homeostasis as a supportive ionic balance. The touch/mechanical stimulus term appears ancillary, but the potassium/membrane potential theme best explains the cluster.","confidence":"High","size":17,"edges":14,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0030007","count":6},{"id":"GO:0098914","count":5},{"id":"GO:0050976","count":5},{"id":"GO:0060081","count":5}]},{"hash":"644737691335612798","title":"Ubiquitin-dependent proteolysis and neuronal development","description":"The cluster is dominated by ubiquitin-proteasome\u2013related terms (polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent catabolic process, ubiquitin-dependent protein catabolic process, ERAD), implying a shared function in protein degradation; two terms point to neuronal development (neuron projection development, neural tube closure), suggesting a possible link between ubiquitin turnover and neural differentiation. Other terms are less central.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0030433","count":2}]},{"hash":"2234705457897776350","title":"Unknown","description":"This cluster includes terms across regulatory signaling (GTPase activity), chromatin modification, pronucleus assembly/egg activation, palmitoylation, vesicle trafficking, and various developmental processes (neuron and sebaceous gland development). The terms do not converge on a single cohesive function or pathway, indicating a mixed collection rather than a unified cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":1},{"id":"GO:0071442","count":1},{"id":"GO:0035038","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0042144","count":1}]},{"hash":"1242507392141646498","title":"Mitochondrial energy metabolism and sulfur processing","description":"The top terms overwhelmingly point to mitochondrial functions, including NADH to ubiquinone electron transport and assembly of respiratory chain complex II, indicating a mitochondrial energy metabolism theme. The presence of transsulfuration, redox homeostasis, tRNA seleno-modification, molybdopterin cofactor biosynthesis, and Urm1-related protein urmylation suggests linked sulfur biochemistry and protein modification processes that connect to mitochondrial function.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0000087","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1125576626591900287","title":"Unknown","description":"The proteins show a mix of GO terms spanning transcription, immune regulation, sensory perception, cell cycle control, signaling via cAMP/adenylate cyclase, and cardiac regulation, with no single cohesive function or pathway tying them together. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0046007","count":1},{"id":"GO:0009454","count":1},{"id":"GO:0007608","count":1},{"id":"GO:0051447","count":1}]},{"hash":"2089539033150399604","title":"Organelle-Specific Autophagy","description":"Top GO terms include piecemeal microautophagy of the nucleus, mitophagy, glycophagy, reticulophagy, the Cvt pathway, and phagophore assembly site localization, indicating the proteins cluster around organelle- and component-specific autophagy processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034727","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0000422","count":1},{"id":"GO:0061723","count":1},{"id":"GO:0035096","count":1}]},{"hash":"2253589937874227410","title":"Retinoic acid signaling and sensory organ development","description":"The top GO terms emphasize retinoid metabolism (9-cis-retinoic acid biosynthetic process, retinol metabolic process) and sensory organ formation (inner ear morphogenesis, embryonic camera-type eye development), suggesting a theme of retinoic acid\u2013mediated regulation of eye/ear development. While a few metabolic/organogenesis terms are present, the shared retinoid and sensory-development signals are strong enough to name the cluster accordingly.","confidence":"High","size":17,"edges":18,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001568","count":2},{"id":"GO:0042904","count":2},{"id":"GO:0042472","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0019413","count":2}]},{"hash":"182659987070664651","title":"Unknown","description":"The GO terms are highly varied and lack a common functional theme (proteasome regulation, endopeptidase activity, cell cycle control, antigen processing, mitochondrial distribution, asymmetric neuroblast division, various metabolic and glycosylation processes, and translation regulation). Without a coherent shared function, a focused label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061136","count":1},{"id":"GO:0010950","count":1},{"id":"GO:2000045","count":1},{"id":"GO:0019884","count":1},{"id":"GO:0048312","count":1}]},{"hash":"1645476717811864797","title":"Innate immune signaling and interferon response","description":"This cluster is dominated by GO terms related to innate immune sensing and antiviral signaling, including toll-like receptor pathways (TLR3 and TLR10), response to exogenous dsRNA, and positive regulation of interferon production (type II and interferon-beta). The recurring emphasis on interferon production and dsRNA sensing strongly points to antiviral innate immunity as the core theme, with additional kinase signaling regulation supporting broader signal transduction control. A few terms touch on neural or plant development (axonogenesis, axis specification, floral meristem growth) but these are less represented and do not define the cluster\u2019s primary function. Overall, the immune signaling\u2013interferon axis best explains the prevalent terms.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007409","count":7},{"id":"GO:0006469","count":7},{"id":"GO:0007352","count":6},{"id":"GO:0002322","count":6},{"id":"GO:0045078","count":6}]},{"hash":"1886925793050863388","title":"DNA repair and telomere maintenance","description":"The proteins are enriched for DNA repair and telomere biology: lagging strand elongation, telomere maintenance via telomerase, telomere capping, single-strand break repair, and DNA ligation in repair, with PARP-related activities. Some terms like estrogen metabolism and Wnt signaling appear as peripheral aspects, but the core theme is genome stability and telomere regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006273","count":1},{"id":"GO:0032212","count":1},{"id":"GO:0051103","count":1},{"id":"GO:0008210","count":1},{"id":"GO:0016055","count":1}]},{"hash":"763527943989699879","title":"Protein quality control under ER/oxidative stress","description":"This cluster centers on terms related to stress responses and protein maintenance, including ER stress response, oxidative stress defense, protein repair/modification (deglytathionylation and proline hydroxylation), and redox homeostasis. Although a viral process term appears, the dominant theme is cellular mechanisms that preserve protein integrity and function under stress, i.e., protein quality control during oxidative/ER stress.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":3},{"id":"GO:0030091","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0018401","count":2}]},{"hash":"680170917365304895","title":"Proteasome regulation and ubiquitination","description":"This cluster is driven by GO terms related to proteolysis and ubiquitination, including regulation of proteasomal protein catabolism, positive regulation of endopeptidase activity, and K33-linked ubiquitination. These point to a shared theme of proteostasis and ubiquitin-mediated protein turnover, though several peripheral terms (antigen processing, circadian rhythm, flowering) suggest some noise or multifunctionality.","confidence":"Medium","size":16,"edges":93,"triangles":287,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0061136","count":1},{"id":"GO:0010950","count":1},{"id":"GO:2000045","count":1},{"id":"GO:0019884","count":1},{"id":"GO:0044655","count":1}]},{"hash":"86781457039467954","title":"Innate Immune Signaling and Xenophagy","description":"The cluster is dominated by terms related to innate immune pathways (NOD2 signaling, Toll signaling, dendritic cell antigen presentation) and autophagy regulation (positive regulation of xenophagy), as well as cytokine production (IL-8, IL-18). These points suggest a cohesive theme around immune sensing and autophagic responses. A few terms (lamellipodium organization, floral meristem growth) are outliers, likely reflecting broad GO mappings or cross-species annotations, but do not override the central immune/autophagy signal.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904417","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0042228","count":1},{"id":"GO:0032621","count":1},{"id":"GO:0007352","count":1}]},{"hash":"1941633704167127979","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"Most enriched terms point to ubiquitin-dependent degradation pathways (obsolete ERAD, SCF-dependent proteasomal degradation, K11-linked ubiquitination) and core mitotic events (mitotic cell cycle, G2/M transition). This indicates a cohesive theme of proteolysis governing cell-cycle progression, with additional downstream links to chromatin remodeling and development that may reflect broader roles of proteostasis during growth.","confidence":"High","size":16,"edges":34,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0070979","count":2}]},{"hash":"705562760462168414","title":"Unknown","description":"The top GO terms span xenobiotic transport, lipid/hormone metabolism (PPAR signaling, cholesterol import, glucocorticoid metabolism), circadian rhythm, and plant development (meristem, integument) as well as hormonal responses. This mix across kingdoms and processes suggests no single cohesive function binds the cluster, so a unified, intuitive label cannot be derived.","confidence":"","size":16,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0035360","count":1},{"id":"GO:0042747","count":1},{"id":"GO:0080060","count":1},{"id":"GO:0008211","count":1}]},{"hash":"1463724346819112480","title":"Unknown","description":"There is no single dominant function linking the GO terms: DNA replication, DNA repair, and mitotic cell cycle suggest genome maintenance; potassium ion transport and neural development terms (axonogenesis, corpus callosum development) point to neural physiology; dopamine response, lipopolysaccharide signaling, and xenophagy indicate neurotransmission and immune/autophagy processes. The mixture and lack of interactions imply a heterogeneous group without a coherent shared function.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0006813","count":11},{"id":"GO:0006281","count":10},{"id":"GO:1903351","count":9},{"id":"GO:1904417","count":9}]},{"hash":"1721016025440880024","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1429404230443045997","title":"DNA Damage Response and UV-Induced Repair","description":"GO terms center on DNA repair and UV response (NER, TLS, replication) indicating a coherent function in sensing and repairing UV-induced DNA damage and maintaining genome integrity; a few terms on protein homeostasis and nuclear export may reflect broader stress responses.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0070987","count":1},{"id":"GO:0071494","count":1},{"id":"GO:0006261","count":1}]},{"hash":"397372273547650502","title":"Unknown","description":"The cluster contains highly diverse GO terms covering heat response, RNA splicing, gene silencing, plant hormone biosynthesis, meiosis regulation, cardiac electrophysiology, immune signaling, vascular remodeling, and epithelial polarity, with no obvious shared function or pathway linking the proteins. Therefore there isn't a single coherent theme to label concisely; best to mark as Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0000244","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0010372","count":1},{"id":"GO:0031047","count":1}]},{"hash":"448838569492917097","title":"Unknown","description":"The top GO terms span diverse processes (amino acid catabolism, TCA/glyoxylate metabolism, quinolinate biosynthesis, mitochondrial tRNA modification) as well as signaling (Notch) and hormone response (glucocorticoid), with no single cohesive function tying all terms together. Because the cluster lacks a clear, shared biological process, a precise label cannot be confidently assigned.","confidence":"","size":16,"edges":95,"triangles":303,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042853","count":6},{"id":"GO:0007219","count":5},{"id":"GO:0019805","count":5},{"id":"GO:0097053","count":5},{"id":"GO:0019878","count":4}]},{"hash":"1248310396505296570","title":"Transcriptional Regulation and Development Signaling","description":"The cluster features terms tied to DNA-templated transcription, regulation of phosphorylation, and cell cycle control (G2/M), along with several developmental processes (Schwann cell development, heart development). This pattern suggests proteins that regulate gene expression and signaling pathways central to development and cell division, rather than a single, specific process.","confidence":"Medium","size":16,"edges":68,"triangles":165,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046827","count":11},{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0014044","count":6},{"id":"GO:0000086","count":6}]},{"hash":"1477014179125058200","title":"Unknown","description":"The terms are highly mixed: vesicle trafficking between Golgi and ER (COPII budding, retrograde transport), cytoskeletal regulation (Arp2/3-mediated actin nucleation), DNA repair (homologous recombination), RNA processing and ribosome maturation, and development-related terms (forebrain development). Obsolete terms and aging annotations add noise. There isn\u2019t a single coherent function tying these proteins together, so Unknown with no clear confidence is the most appropriate label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:2000601","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006890","count":2}]},{"hash":"1045393160423515213","title":"Cardiac Potassium Transport and Electrophysiology","description":"The cluster's GO terms emphasize potassium ion transport and membrane potential regulation, including hyperpolarization and AV node action potential, which point to cardiac electrical activity. Additional terms touch on heart development (outflow tract morphogenesis) and vascular remodeling, suggesting a cardiac context for these proteins. Therefore, a label focusing on potassium transport and cardiac electrophysiology best represents the cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990573","count":3},{"id":"GO:0060081","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0072089","count":2},{"id":"GO:0034767","count":2}]},{"hash":"1534146631099734993","title":"Bacterial flagellar motility and metabolism","description":"The cluster is dominated by GO terms for prokaryotic motility and flagellum assembly (bacterial-type flagellum-dependent cell motility; bacterial-type flagellum assembly) alongside core metabolic processes (fermentation, TCA cycle, aerobic respiration, methanogenesis) and molybdenum cofactor biosynthesis, suggesting a group of proteins involved in energy metabolism with flagellar machinery. The presence of an outlier term like mitotic M phase is likely annotation noise or cross-species artifact, but the overall theme aligns with bacterial energy metabolism and motility. ","confidence":"Medium","size":16,"edges":22,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006113","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0071973","count":1},{"id":"GO:0019516","count":1},{"id":"GO:0044780","count":1}]},{"hash":"663149889517926606","title":"ECM remodeling and cell adhesion","description":"The cluster is dominated by GO terms related to cell-matrix interactions and remodeling, including integrin signaling, calcium-independent cell-matrix adhesion, and regulation of extracellular matrix assembly, combined with migration/extravasation and metallopeptidase activity. Additional terms touch on development and immune cell interactions (endodermal differentiation and T cell activation), suggesting a broad theme of ECM-driven adhesion and remodeling that facilitates cell movement and signaling across development, immunity, and neural contexts.","confidence":"High","size":16,"edges":16,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":2},{"id":"GO:0006929","count":2},{"id":"GO:0045123","count":2},{"id":"GO:1901202","count":2},{"id":"GO:0035987","count":2}]},{"hash":"1630630391182658377","title":"Intracellular trafficking and gene regulation","description":"Dominated by trafficking-related GO terms (protein transport, receptor recycling, endosome size, mitochondrial inner membrane insertion) with a few transcription/splicing signals and a glutamatergic synapse term, suggesting a cluster of proteins involved in intracellular transport with gene-regulation context.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0034968","count":1}]},{"hash":"66703929241089613","title":"Bacterial cell envelope biosynthesis","description":"This cluster centers on biosynthetic processes for cell envelope components and related lipids, including lipopolysaccharide, teichoic and lipoteichoic acids, fatty acids, and UDP-N-acetylglucosamine. These pathways collectively support production of the bacterial cell wall and membrane structures, with additional support from peptidoglycan precursor synthesis, explaining the \u201ccell shape\u201d regulation term. ","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0005989","count":1},{"id":"GO:0070400","count":1}]},{"hash":"1327668877821894635","title":"T Cell Helper and Germinal Center Regulation","description":"The cluster is enriched for adaptive immune functions: T cell homeostasis, T follicular helper cell differentiation, and lymph node development, with negative regulation of germinal center formation. Additional signals such as p38 MAPK cascade and glucocorticoid response indicate coordinated immune signaling and stress-related regulation, while ubiquitination and mRNA decay suggest broader protein regulation within these pathways. Together, these terms point to T cell\u2013driven immune responses and germinal center dynamics.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0043029","count":1},{"id":"GO:0048535","count":1},{"id":"GO:0038066","count":1},{"id":"GO:0031086","count":1}]},{"hash":"831866563994952593","title":"Chromatin silencing and heterochromatin regulation","description":"The cluster\u2019s terms predominantly describe chromatin state control and heterochromatin formation (pericentric and silent mating-type locus), nucleosome positioning, and related transcriptional repression mechanisms, indicating a cohesive function in chromatin remodeling and gene silencing. Some terms are obsolete or represent related regulatory processes, but the core theme remains chromatin-based regulation of transcription.","confidence":"High","size":16,"edges":14,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0071922","count":1},{"id":"GO:0010621","count":1},{"id":"GO:0045668","count":1},{"id":"GO:0009861","count":1},{"id":"GO:0010832","count":1}]},{"hash":"993665177887276214","title":"Transmembrane Transporters","description":"The top GO terms are dominated by transmembrane transport of a wide range of solutes (nitrate, vitamins, sugars like arabinose and galactose, phosphate, sialic acid, xenobiotics) plus a vesicular neurotransmitter loading term, pointing to a shared function as membrane transport proteins handling diverse substrates.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0006004","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015751","count":1}]},{"hash":"131130711380496954","title":"Vesicle trafficking and membrane transport","description":"This cluster highlights several GO terms tied to the formation and movement of vesicles and the transport of proteins and membranes between compartments (e.g., synaptic vesicle budding, endosome-to-plasma membrane transport, lipoprotein particle assembly). While there are some unrelated terms suggesting species- or process-specific roles, the strongest cohesive signal is vesicle trafficking and membrane dynamics.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0034379","count":1},{"id":"GO:0061000","count":1},{"id":"GO:1902307","count":1},{"id":"GO:0033028","count":1}]},{"hash":"1057714528140342881","title":"TLR signaling and inflammasome activation","description":"The top GO terms cluster around Toll-like receptor pathways (TLR1, TLR6), lipopolysaccharide signaling, detection of triacyl lipopeptides, cytokine signaling, and activation of the NLRP3 inflammasome with non-canonical NF-kappaB signaling, indicating a coherent innate immune response to bacterial components. Some terms (e.g., cortisol response, dorsal/ventral axis specification) are less central and may reflect broader or pleiotropic roles, but the dominant theme is TLR- and inflammasome-mediated inflammation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":2},{"id":"GO:1904027","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1900227","count":2},{"id":"GO:0034130","count":2}]},{"hash":"1215002317788080524","title":"Spermatogenesis and Gamete Formation","description":"The top GO terms include acrosome assembly and spermatid nucleus elongation, which are classic hallmarks of spermatogenesis and male gamete formation, with brood size regulation also linking to reproductive output. While there are broader terms like cell cycle/division and movement, the strongest cohesive signal across the terms is gamete development and related reproductive processes, suggesting this cluster centers on male reproductive biology with some additional cellular process signals.","confidence":"Medium","size":16,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0046677","count":1},{"id":"GO:0090326","count":1},{"id":"GO:0060378","count":1}]},{"hash":"931379667194485801","title":"TLR/NLRP3 innate immune signaling","description":"This cluster is dominated by GO terms related to innate immunity: defense response to Gram-positive bacteria, Toll-like receptor 6 signaling, and positive regulation of the NLRP3 inflammasome, pointing to pattern-recognition and inflammasome-driven inflammation as the core function. Some translation/ribosome-related terms appear among the terms, but the dominant signal centers on innate immune signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000466","count":2}]},{"hash":"1759278888208185469","title":"Xenobiotic and nutrient transporter cluster","description":"The proteins show enrichment for xenobiotic export/transport and drug-specific transport (including daunorubicin and doxorubicin), along with antibiotic response and regulatory/transport roles in nutrient absorption (cholesterol, phytosterol, methionine). The dominant theme is membrane transporters handling xenobiotics and nutrients, forming a coherent transporter-focused cluster, despite a few outlier terms.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046618","count":4},{"id":"GO:0045796","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0043215","count":4},{"id":"GO:0046677","count":4}]},{"hash":"685368177520532236","title":"Cholesterol and Xenobiotic Transport","description":"This cluster is dominated by GO terms related to cholesterol homeostasis, cholesterol efflux, and xenobiotic export/transport, suggesting a core function in membrane transport of lipids and foreign compounds. While a few terms (e.g., pigment biosynthesis, radiation response) are less related, the strongest signals point to lipid/cholesterol handling and xenobiotic movement across membranes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042632","count":2},{"id":"GO:0033344","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0006727","count":1},{"id":"GO:0015772","count":1}]},{"hash":"921988932694612507","title":"Developmental morphogenesis and vesicle trafficking","description":"The terms cluster around developmental processes (wing morphogenesis, chaeta development, spermatid elongation) and intracellular transport/ciliogenesis (ER to Golgi vesicle transport, ciliogenesis, spindle orientation), with one incidental immune-related term. This suggests a coherent theme linking morphogenesis to trafficking/ciliary functions.","confidence":"Medium","size":16,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0007290","count":1},{"id":"GO:0007476","count":1},{"id":"GO:0019886","count":1},{"id":"GO:1902857","count":1}]},{"hash":"713519641600292107","title":"Mitochondrial metabolism and development","description":"Top GO terms point to a mitochondria-centered theme, with regulation of mitochondrial membrane potential and apoptotic mitochondrial changes, plus transport of metabolic cofactors (pyridoxal phosphate, alpha-ketoglutarate) and ions (manganese), and energy-related processes (adaptive thermogenesis) alongside developmental signals (skin and multicellular development). This points to a cluster of proteins tied to mitochondrial metabolism functioning within developmental contexts.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0008637","count":1},{"id":"GO:0031921","count":1}]},{"hash":"102803134829445619","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:1903351","count":3},{"id":"GO:0007520","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0032092","count":3}]},{"hash":"319857134273551236","title":"Unknown","description":"The Top Terms map to disparate processes (actin nucleation, DNA repair, aging, vesicle trafficking, dendrite and forebrain development, mRNA splicing, rRNA maturation, and cellular fusion), with no shared pathway or strongly enriched function across the cluster. The lack of connections and the diverse GO terms suggest there is no unifying function to label, so Unknown is appropriate.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0050773","count":1}]},{"hash":"183150989956854440","title":"TLR and NLRP3 Innate Immune Signaling","description":"The top GO terms point to pattern-recognition receptor pathways (TLR1/6 signaling, LPS and lipoprotein/detection of triacyl lipopeptide) and downstream inflammatory signaling, including cytokine-mediated responses and NLRP3 inflammasome assembly. These indicate a cohesive theme of innate immune sensing and inflammation, despite a few outlier terms that may reflect annotation noise or multi-function proteins. Therefore, the cluster is best described as innate immune signaling centered on TLR/NLR pathways.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":2},{"id":"GO:1904027","count":2},{"id":"GO:0007352","count":2},{"id":"GO:1900227","count":2},{"id":"GO:1904887","count":2}]},{"hash":"1561306745094994540","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by translation and ribosome-related terms (cytoplasmic translation, ribosome biogenesis, large and small subunit assembly, and rRNA processing/export), suggesting proteins involved in ribosome production and use. A few items touch on stress-related pathways (antibiotic response, MAPK signaling), but the primary theme remains ribosome biology.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0000027","count":2}]},{"hash":"1233721049270239481","title":"Translation and Ribosome Biogenesis","description":"The cluster is driven by translation-related terms (GO:0006412) and ribosomal large subunit assembly (GO:0000027), with protein folding (GO:0006457) also present, indicating a core group of proteins involved in protein synthesis and its quality control. While a few terms touch on DNA replication and stress/viral interactions, the dominant signal points to the machinery of protein production. Hence the label reflects the main functional theme with moderate confidence due to a few outliers.","confidence":"Medium","size":15,"edges":89,"triangles":296,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0000027","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0071492","count":1}]},{"hash":"638293326685824940","title":"Seed fatty acid biosynthesis and seed development","description":"Most of the GO terms point to fatty acid biosynthesis and metabolism (including very long-chain and medium-chain FA metabolism and transport) and to seed-specific processes (seed germination regulation and seed coat development). A few outlier terms (bile acid, menaquinone, siderophore biosynthesis) are not clearly plant-related, but the dominant signal is lipid biosynthesis linked to seeds. ","confidence":"High","size":15,"edges":46,"triangles":71,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":6},{"id":"GO:0008206","count":4},{"id":"GO:0000038","count":4},{"id":"GO:0090410","count":4},{"id":"GO:0010030","count":4}]},{"hash":"263073262464433352","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome-related processes (ribosome biogenesis, ribosomal subunit biogenesis, cytoplasmic translation, tRNA modification, export of ribosomal subunits), indicating a functional cluster around assembly of ribosomes and protein synthesis; a few cell division/cell cycle terms may reflect coordination with growth.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000055","count":2},{"id":"GO:1903833","count":2}]},{"hash":"2275493872802934216","title":"TLR-driven antiviral and inflammatory signaling","description":"The dominant GO terms point to innate immune sensing and response, including toll-like receptor pathways (TLR3, TLR10), response to dsRNA, and induction of interferons (IFN-\u03b2, type II IFN) alongside inflammatory processes. A couple of non-immune terms (zygotic axis, floral meristem growth) may reflect annotation noise, but the core signal supports a cluster of proteins involved in TLR-mediated antiviral defense and inflammation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":2},{"id":"GO:0002322","count":2},{"id":"GO:0045078","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0010080","count":2}]},{"hash":"584363957685206120","title":"Membrane targeting and protein folding stress response","description":"This cluster is dominated by GO terms for targeting proteins to membranes (co-translational and post-translational) and for responding to protein misfolding (unfolded protein response, chaperone-assisted refolding). Together, these indicate a module centered on protein quality control at membranes and during translation, with supporting hints from iron-sulfur cluster assembly and stress-related signaling; some terms (DNA replication, karyogamy) are peripheral but do not redefine the core theme.","confidence":"High","size":15,"edges":74,"triangles":178,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0000742","count":3},{"id":"GO:0016226","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0031204","count":3}]},{"hash":"2012446255400173204","title":"Intracellular vesicle trafficking","description":"These terms collectively point to intracellular vesicle movement, cargo loading, and organelle-to-organelle transport (ER-Golgi, endosome-lysosome, lysosome, melanosome) as well as clathrin-mediated sorting and antigen processing pathways, indicating a cohesive vesicle trafficking/sorting theme. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006622","count":3},{"id":"GO:0048499","count":3},{"id":"GO:1990019","count":3},{"id":"GO:0048007","count":3}]},{"hash":"865803090785304738","title":"Neuronal spine morphogenesis and vesicle trafficking","description":"This cluster shows strong representation of dendritic spine development and morphogenesis (positive regulation of dendritic spine development, regulation of dendritic spine morphogenesis), along with actin dynamics processes (lamellipodium/ruffle assembly, Rac signaling). It also includes several GO terms for intracellular trafficking involving the ER\u2013Golgi and Golgi\u2013plasma membrane pathways, and endosome-to-Golgi transport, suggesting a coordinated role in neuronal structure formation with membrane trafficking.","confidence":"High","size":15,"edges":49,"triangles":53,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060999","count":10},{"id":"GO:0006888","count":10},{"id":"GO:0021766","count":9},{"id":"GO:0045792","count":9},{"id":"GO:0043001","count":9}]},{"hash":"2242399416956002252","title":"Neuronal Dendrite and Cilium Signaling","description":"Based on the top GO terms, this cluster concentrates on neuron structure and sensory-related processes: dendrite morphogenesis and visual perception point to neuronal morphology and retina-associated function; cilium assembly aligns with photoreceptor/ciliary signaling; receptor recycling and Ran signaling indicate membrane trafficking and intracellular signaling, while potassium ion transport hints at neuronal excitability. Although some terms are general (mitotic cell cycle, transcription), the prevailing pattern is neuronal structure and ciliary signaling, suggesting a coherent functional theme.","confidence":"High","size":15,"edges":99,"triangles":386,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0043552","count":6},{"id":"GO:0048813","count":6},{"id":"GO:0006813","count":6}]},{"hash":"247812574136942651","title":"Golgi-ER Vesicle Transport and Polarity","description":"This cluster is dominated by GO terms for bidirectional ER-Golgi vesicle transport and establishment of epithelial cell polarity, suggesting a core theme of intracellular trafficking and cell organization. Additional terms on endothelial processes, immune signaling, and cell division appear as secondary associations, indicating some functional diversity or noise, but the central pattern aligns with vesicular transport and polarity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0010845","count":2},{"id":"GO:1900827","count":2}]},{"hash":"376876223271241360","title":"Amino acid catabolism and central carbon metabolism","description":"The GO terms cluster around glycolysis, the TCA cycle, and amino acid catabolism (leucine, alanine), with 2-oxoglutarate metabolism and associated biosynthesis (thiamine, malonyl-CoA, fatty acids) and redox/signaling (cAMP), suggesting roles in core energy production and amino acid breakdown plus supporting biosynthetic processes.","confidence":"Medium","size":15,"edges":19,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006552","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0045454","count":3},{"id":"GO:0006103","count":3},{"id":"GO:0006099","count":3}]},{"hash":"948547229707616643","title":"Negative Regulation of Signaling and Metabolic Processes","description":"The proteins in this cluster are linked to many GO terms centered on suppressing cellular activities\u2014intracellular signal transduction, regulation of fatty acid oxidation, cytokine production in inflammation, smooth muscle proliferation, and cell-matrix adhesion. The unifying theme is inhibitory control across signaling and metabolic pathways, even though a few terms (e.g., seed maturation) may reflect broader or pleiotropic functions. This cohesive pattern supports a label focused on negative regulation of signaling and metabolism.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0051895","count":1},{"id":"GO:0042308","count":1},{"id":"GO:0046322","count":1},{"id":"GO:0010431","count":1}]},{"hash":"350975547512049871","title":"DNA replication and centrosome cycle","description":"The top GO terms are dominated by DNA replication, regulation of nuclear DNA replication, centrosome cycle, and mitotic centrosome separation, pointing to a core theme of cell cycle control and centrosome dynamics. While several terms relate to immune signaling and development, these appear secondary to the central DNA replication/centrosome processes, supporting a label focused on the cell cycle machinery.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0010571","count":11},{"id":"GO:0007098","count":11},{"id":"GO:0048701","count":11},{"id":"GO:0007100","count":10}]},{"hash":"396839701757473784","title":"Histone Modification and Nucleosome Assembly","description":"The terms cluster around histone modifications (methylation/acetylation) and nucleosome assembly, with connections to DNA-templated transcription, indicating a core function in chromatin regulation and epigenetic control of transcription. Despite some obsolete terms, the overarching theme is chromatin state management affecting gene expression.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051567","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0021766","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0034772","count":1}]},{"hash":"1342061000354096531","title":"Unknown","description":"Top GO terms span development (D/V axis specification, floral meristem growth), diverse immune signaling (Toll and TLR pathways, defense against Gram-positive bacteria), chromatin localization, and stress responses, with no consistent functional module evident and no edges linking proteins. This lack of a cohesive shared function makes it inappropriate to assign a focused label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":1},{"id":"GO:1904887","count":1},{"id":"GO:0008063","count":1},{"id":"GO:0034130","count":1},{"id":"GO:1902350","count":1}]},{"hash":"1167031703916324628","title":"Integrated signaling in neural, vascular, and cardiac development","description":"The terms point to signaling across multiple systems: cardiac development and electrophysiology (outflow tract morphogenesis, AV node depolarization), vascular remodeling (endothelial delamination), neural signaling (synaptic plasticity, pain behavior, cAMP response), immune regulation (macrophage cytokine production), hormone biosynthesis (cortisol), autophagy, and ion transport. This suggests a broad, cross-tissue signaling theme rather than a single narrow function, so a compact, representative label is \u201cIntegrated signaling in neural, vascular, and cardiac development.\u201d","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":2},{"id":"GO:0034767","count":2},{"id":"GO:0086045","count":2},{"id":"GO:0071642","count":2},{"id":"GO:0097497","count":2}]},{"hash":"734559424721696890","title":"Ubiquitination and Proteasomal Degradation","description":"This cluster is dominated by GO terms describing ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation and various ubiquitin linkages (K48, K6, K11) that tag substrates for proteasomal breakdown. The presence of autoubiquitination and ubiquitin-dependent ERAD pathway reinforces a core module of ubiquitin signaling leading to proteolysis. A secondary signal mentions peroxisomal matrix import via ubiquitin-related mechanisms, and a few terms touch on DNA replication and skeletal muscle development, which may reflect broader roles of ubiquitination in cell cycle and tissue development, but the dominant theme is ubiquitin-mediated protein turnover.","confidence":"High","size":15,"edges":25,"triangles":15,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0016558","count":6},{"id":"GO:0030433","count":6}]},{"hash":"901842550181114859","title":"Telomere regulation and growth/differentiation signals","description":"Label reflects the strongest recurring signal: regulation of telomere maintenance via telomerase and telomere capping, which provides a coherent core theme. The cluster also includes diverse terms related to cell growth, differentiation, muscle response, and RNA processing; these suggest broader regulatory roles but do not unify as tightly as the telomere-related terms. Overall, telomere regulation is the most representative shared function in this set, with some peripheral growth/differentiation signals.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0035994","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0016049","count":3}]},{"hash":"1672247715920757361","title":"Neural development and synaptic signaling","description":"This cluster centers on neural development and neuronal signaling, with terms like axonogenesis, Schwann cell development, long-term synaptic potentiation, and visual perception suggesting growth and function of neural circuits. While there are also cell-cycle and non-neural terms (e.g., mitotic transitions, a plant signaling term, heart development) these appear less representative, so the prevailing theme is neural development and synaptic activity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0014044","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0007409","count":2}]},{"hash":"1363120458217165547","title":"Neural development and ciliogenesis","description":"This cluster is characterized by strong representation of ciliogenesis-related terms (axoneme assembly, ciliary basal body organization) alongside neural development terms (brain development, forebrain radial glial cell differentiation, cerebrospinal fluid secretion). Together, these point to a module involved in cilia-associated processes that contribute to neural development, with a few outliers (e.g., a meiosis term) that may reflect broader developmental annotation overlap.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035082","count":1},{"id":"GO:0033326","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0032053","count":1},{"id":"GO:0043046","count":1}]},{"hash":"769012649577533434","title":"Neural development and signaling","description":"This cluster is driven by terms tied to neural development and signaling, notably hippocampus development, canonical Wnt signaling, and ERK1/ERK2 cascade regulation, plus positive regulation of neuron apoptotic processes. A few terms (bradykinin catabolic process, bone resorption, CVT autophagy) are less connected and may reflect multifunctional proteins or noise, but the neural development/signaling theme is the strongest signal overall.","confidence":"Medium","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":4},{"id":"GO:0051291","count":3},{"id":"GO:0045453","count":3},{"id":"GO:0060070","count":2},{"id":"GO:0032258","count":2}]},{"hash":"716686305631866692","title":"Organelle-specific Autophagy","description":"Top GO terms point to autophagy targeting organelles: mitophagy, nucleophagy, glycophagy, autophagosome assembly, and related Cvt pathway; also, C-terminal protein lipidation ties to autophagy machinery.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006501","count":1},{"id":"GO:0034727","count":1},{"id":"GO:0032258","count":1},{"id":"GO:1902017","count":1},{"id":"GO:0000045","count":1}]},{"hash":"2157317401664279529","title":"Unknown","description":"The top GO terms span embryonic axis specification, neural development (corpus callosum development, synapse assembly), and immune signaling (TLR pathways, interferon production, dsRNA response, B cell proliferation). Also includes plant-specific development (floral meristem growth). Because there is no single cohesive function linking these terms, there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":2},{"id":"GO:0048681","count":2},{"id":"GO:0002322","count":2},{"id":"GO:0045078","count":2},{"id":"GO:0022038","count":2}]},{"hash":"1122685891215572665","title":"TLR signaling and interferon response","description":"This cluster is dominated by Toll-like receptor signaling terms (TLR1, TLR3, TLR10), response to exogenous dsRNA, inflammatory response, and interferon production (type II and interferon-beta), pointing to a module of innate immune sensing and antiviral cytokine signaling, with B cell proliferation suggesting links to adaptive immunity. A couple of plant development terms appear but do not define the primary theme here.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":6},{"id":"GO:0034130","count":6},{"id":"GO:0002322","count":6},{"id":"GO:0045078","count":6},{"id":"GO:0010080","count":6}]},{"hash":"648457483264548126","title":"Neural development and transcription regulation","description":"The cluster centers on developmental processes and gene expression, with strong emphasis on neural development (forebrain development, neural tube closure) and heart development, plus broad multicellular development, aligned with DNA-templated transcription. This suggests proteins that regulate transcription during development, particularly in neural and cardiac lineages; a minority of terms reflect stress or imprinting and are less central to the main theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1188779916970860629","title":"Cellular stress response and protein folding","description":"The cluster centers on stress-related processes: unfolded protein response and chaperone-mediated folding, plus responses to metal ions like cadmium and lead. The presence of glucocorticoid signaling and gluconeogenesis regulation suggests broader stress signaling and metabolic adjustment. Overall, these terms point to a cohesive theme of cellular stress management and protein homeostasis, though some terms are obsolete or loosely connected.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":2},{"id":"GO:2000324","count":1},{"id":"GO:0071276","count":1},{"id":"GO:0090526","count":1},{"id":"GO:1903646","count":1}]},{"hash":"607930378727301192","title":"TLR-driven antiviral immune signaling","description":"The top terms center on Toll-like receptor signaling (TLR3, TLR8, TLR10), dsRNA response, interferon production (including IFN-\u03b2), and inflammatory response, with overlap to B cell proliferation. Although there are a couple of plant development terms present, the dominant pattern is innate antiviral immune signaling via TLRs and interferon pathways, which makes this label representative of the cluster's function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":14},{"id":"GO:0002322","count":14},{"id":"GO:0045078","count":14},{"id":"GO:0010080","count":14},{"id":"GO:0034166","count":14}]},{"hash":"623224225755933640","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0044205","count":4},{"id":"GO:0070814","count":3},{"id":"GO:0072606","count":3},{"id":"GO:0098924","count":3}]},{"hash":"654790084443070400","title":"Heart Development and Cardiac Muscle Regulation","description":"The top GO terms cluster around heart development (including ventricular muscle morphogenesis) and regulation of muscle contractility, with features like negative regulation of protein kinase activity and muscle filament sliding regulation. Supporting terms covering transcriptional control, stress hormone response, and cellular remodeling fit developmental and functional changes in cardiac tissue. This combination points to a cohesive theme of cardiac development and muscle regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0035191","count":1},{"id":"GO:0032972","count":1}]},{"hash":"1982567905938800811","title":"Golgi trafficking and protein processing","description":"The listed GO terms are dominated by Golgi-related processes: ER-to-Golgi transport, protein retention in the Golgi, and glycosylation, suggesting a cluster centered on Golgi trafficking and post-translational modification of proteins. Some outlier terms (stress responses, necroptosis, autophosphorylation) are less cohesive with this theme, but the core signal points to Golgi-associated processing. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0006486","count":1},{"id":"GO:0045053","count":1},{"id":"GO:0031505","count":1},{"id":"GO:0071454","count":1}]},{"hash":"1177753715674555253","title":"Unknown","description":"These proteins show a scattered mix of GO terms, including potassium ion transmembrane transport, DNA-templated transcription, immune regulation, aerotaxis, smell perception, meiotic cell cycle regulation, adenylate cyclase activity, cardiac muscle proliferation, heart rate regulation, and cellular response to cAMP. The broad diversity (and minimal network connectivity) indicates no single cohesive function or pathway dominating the cluster. As a result, there is no clear, specific label that accurately captures the cluster's biology.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0046007","count":1},{"id":"GO:0009454","count":1},{"id":"GO:0007608","count":1}]},{"hash":"257518617985299228","title":"Bacterial Secretion and Lipid Transport","description":"Dominant GO terms point to secretion and membrane transport in bacteria (protein secretion by the Type I secretion system, bacteriocin transport, teichoic acid transport, xenobiotic export). Lipid-related processes (ceramide translocation, very long-chain fatty acid catabolic process, methionine transport) suggest membrane-associated transport and lipid metabolism; translation initiation terms appear less representative. Overall, the cluster centers on secretion/transport functions with supportive lipid-related processes.","confidence":"High","size":14,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0015821","count":2},{"id":"GO:0046618","count":2},{"id":"GO:0043213","count":2}]},{"hash":"2038839192375043503","title":"Broad Substrate Membrane Transporters","description":"The top GO terms are predominantly various transmembrane transport processes for diverse substrates (nitrate, vitamins, sugars, xenobiotics, sialic acid, phosphate) and a vesicular neurotransmitter loading process, suggesting this cluster groups membrane transport proteins with broad specificity rather than a single substrate pathway. The presence of a sugar and sugar-alcohol related transport terms alongside xenobiotic and ion transport supports a general transporter theme.","confidence":"High","size":14,"edges":37,"triangles":8,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0015751","count":2}]},{"hash":"3580693137659705","title":"Amino acid transport across plasma membrane","description":"The top GO terms predominantly reflect import of various amino acids across the plasma membrane (arginine, lysine, methionine, ornithine, D-alanine, D-serine), indicating a membrane transport function for amino acids. Nitric oxide production and arginine catabolic process are related to arginine metabolism but are secondary to the transport signal; COPII vesicle coating and melanosome assembly are less connected to the core theme. Overall, the cluster centers on transmembrane amino acid uptake.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006527","count":1},{"id":"GO:0097639","count":1},{"id":"GO:0044690","count":1},{"id":"GO:0042941","count":1},{"id":"GO:0097638","count":1}]},{"hash":"773150386183999869","title":"Neuronal signaling and polarity regulation","description":"This cluster centers on GO terms related to dopamine response, regulation of neural signaling (EPSP), Wnt signaling, endosome-to-Golgi transport, and maintenance of cell polarity, with additional links to nerve morphogenesis. The common thread is signaling coordination and polarity control in neural contexts, suggesting a module of proteins involved in neuronal signaling and cellular organization.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903351","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0031384","count":3},{"id":"GO:2000172","count":3},{"id":"GO:1902499","count":3}]},{"hash":"1424104961834236975","title":"Spliceosome-Driven RNA Processing and rRNA Maturation","description":"The top GO terms cluster around spliceosome-mediated mRNA splicing and related spliceosomal conformational changes, plus rRNA maturation and ribosome assembly, indicating a nucleus-centric role in RNA processing and ribosome biogenesis. Some outliers (transcription termination, viral genome replication) are peripheral to the core theme but do not contradict it.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0006369","count":7},{"id":"GO:0019079","count":6}]},{"hash":"1281210539727940885","title":"DNA Replication and RNA Processing","description":"The cluster\u2019s top GO terms center on DNA replication, RNA processing, and related nucleic acid metabolism (e.g., DNA replication, RNA processing, nonsense-mediated decay, RNA primer removal in replication). Viral genome replication signals suggest possible involvement with virus-host interactions, but the dominant pattern points to nucleic acid synthesis and processing. Minor signals like telomere maintenance regulation and autophagy activation by symbionts add context but are less representative. Overall, the label captures the core theme of nucleic acid replication and RNA metabolism.","confidence":"Medium","size":14,"edges":58,"triangles":109,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0006260","count":2}]},{"hash":"855235215031389744","title":"Nuclear Transport and Spliceosomal Assembly","description":"This cluster is dominated by nuclear-related processes: ribosomal protein import into the nucleus and NLS-bearing protein import into the nucleus, along with spliceosomal complex assembly, which together point to nuclear transport and RNA processing. The other terms (zinc ion transport, cilium-associated transport, and viral processes) are less central and likely incidental, not altering the main nucleus-focused theme. Overall, the label reflects the strongest, most coherent signal among the terms.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":1},{"id":"GO:0016032","count":1},{"id":"GO:0000245","count":1},{"id":"GO:0006607","count":1},{"id":"GO:0035735","count":1}]},{"hash":"2042459616217926125","title":"TLR Signaling and Interferon-Mediated Inflammation","description":"These GO terms converge on Toll-like receptor signaling pathways (TLR3, TLR10, and MyD88-dependent signaling), responses to dsRNA and LPS, and downstream inflammatory actions including interferon-beta production and chemokine induction. While one term relates to chromatin silencing, the dominant theme is innate immune sensing and cytokine-mediated inflammation driven by TLRs and interferon signaling.","confidence":"High","size":14,"edges":6,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0030466","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0034166","count":3},{"id":"GO:0043330","count":3}]},{"hash":"724178326925052630","title":"Microtubule Organization and Mitosis","description":"These proteins show strong enrichment for microtubule-related processes: organization and polarity of the microtubule cytoskeleton, minus-end directed microtubule sliding, axonemal depolymerization, and essential mitotic events like centrosome separation and chromosome recapture. The stress granule disassembly term may reflect microtubule-associated RNA granule dynamics, while epidermal stem cell homeostasis hints at cytoskeletal roles in tissue contexts. Overall, the cluster centers on microtubule dynamics and mitosis. ","confidence":"High","size":14,"edges":56,"triangles":123,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":14},{"id":"GO:0035617","count":14},{"id":"GO:0031534","count":14},{"id":"GO:0032886","count":14},{"id":"GO:0036334","count":14}]},{"hash":"1491636068634045633","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903883","count":2},{"id":"GO:0001519","count":2},{"id":"GO:2000637","count":2},{"id":"GO:0018032","count":2},{"id":"GO:1903265","count":2}]},{"hash":"1235717671052956320","title":"Calcium signaling and muscle fiber development","description":"This cluster shows a clear enrichment for calcium-related terms (detection of calcium ion; regulation of postsynaptic cytosolic calcium; regulation of ryanodine-sensitive calcium-release channel activity) alongside muscle development processes (skeletal muscle fiber development; transition between fast and slow fiber). Schwann cell development and EMT add broader developmental context, while terms like cell cycle/kinetochore localization and ascospore formation are less aligned, possibly reflecting broader biological roles or annotation noise. Overall, calcium signaling intertwined with muscle differentiation best captures the shared function of this cluster.","confidence":"Medium","size":14,"edges":83,"triangles":284,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0060316","count":5},{"id":"GO:0030437","count":5},{"id":"GO:0001837","count":5}]},{"hash":"1018126747916014310","title":"Unknown","description":"The top terms are highly diverse, spanning endosomal transport, outer membrane assembly, metabolism, membrane insertion, peptide biosynthesis, splicing, and developmental signaling. There is no clear single function or pathway linking these proteins, and with no edges among them, a cohesive biological theme cannot be established.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:0043165","count":1},{"id":"GO:0015946","count":1},{"id":"GO:0051205","count":1},{"id":"GO:0043041","count":1}]},{"hash":"1575058713489011514","title":"Synaptic vesicle exocytosis and receptor trafficking","description":"This cluster repeatedly shows terms tied to synaptic transmission, including exocytic insertion of neurotransmitter receptors into the postsynaptic membrane, and vesicle fusion at the presynaptic active zone, as well as long-term potentiation. It also highlights secretory pathway processes (ER-Golgi transport, Golgi ribbon formation) that support vesicle processing and trafficking to the synapse. The combination suggests a coherent theme of neuronal communication and vesicle trafficking, with minor peripheral terms like adhesion and autophagy. ","confidence":"High","size":14,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000463","count":3},{"id":"GO:0090161","count":2},{"id":"GO:0010811","count":2},{"id":"GO:0098967","count":2},{"id":"GO:0031629","count":2}]},{"hash":"922659388065554252","title":"Vesicle Trafficking and Exo-/Endocytosis","description":"Top terms indicate a shared role in intracellular transport and membrane trafficking (Golgi to plasma membrane transport, endosome-to-melanosome transport, and regulation of synaptic vesicle exo-/endocytosis). While some terms touch on ribosomal export or cell cycle and xenobiotic response, the strongest signal is vesicle trafficking across organelles and synaptic compartments, justifying the label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0046909","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1270520416802875931","title":"Meiosis and chromosome segregation","description":"This cluster is dominated by meiosis-related terms: female meiosis chromosome segregation, reciprocal meiotic recombination, meiotic spindle midzone assembly, and female meiosis I, indicating a collective role in meiotic chromosome dynamics. While some terms like mismatch repair and metabolic processes appear, the strongest, coherent signal centers on meiosis, supporting a label focused on meiosis/segregation functions.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006298","count":1},{"id":"GO:0016321","count":1},{"id":"GO:0010105","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0045793","count":1}]},{"hash":"717220887480123553","title":"Neural development and sensory perception","description":"The set of GO terms is dominated by neural development processes (hippocampus development, cortex layer formation, CNS projection neuron axonogenesis, dendrite morphogenesis) and sensory functions (visual perception, perception of sound). These indicate proteins involved in brain development and neuronal morphology and function. Some terms (innate immune response, cell cycle, cadmium response) appear as ancillary annotations and do not override the main neural theme.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0021819","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0021952","count":2},{"id":"GO:0048813","count":2}]},{"hash":"1989018634213550769","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:1902391","count":1},{"id":"GO:2000324","count":1},{"id":"GO:0006478","count":1},{"id":"GO:1903646","count":1}]},{"hash":"432281146628467592","title":"Chromatin Regulation and Nucleotide Biosynthesis","description":"The top GO terms include chromatin-related processes (subtelomeric heterochromatin formation, histone methylation, dosage compensation) alongside nucleotide biosynthesis (GTP, UTP, CTP biosynthetic processes). A few developmental terms are present, but the strongest shared theme is transcriptional/chromatin regulation with a metabolic link to nucleotide production. This suggests a cohesive axis around chromatin control supported by nucleotide biosynthesis rather than a single narrowly defined function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021591","count":1},{"id":"GO:0006348","count":1},{"id":"GO:0003351","count":1},{"id":"GO:0051568","count":1},{"id":"GO:0006183","count":1}]},{"hash":"2196174778090700390","title":"ER stress response and protein folding","description":"This cluster features GO terms tied to ER stress response, protein repair, and redox homeostasis, plus prolyl hydroxylation and extracellular matrix organization, all pointing to ER-based quality control and maturation of secreted proteins. The combination suggests a coherent theme around protein folding and secretory pathway processing.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030091","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0030198","count":1}]},{"hash":"2023770385607098388","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0070475","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1179088843557947381","title":"Hematopoietic transcriptional regulation","description":"This cluster's GO terms center on transcriptional control, including RNA polymerase II preinitiation complex assembly and transcription elongation fidelity, with two terms tied to hematopoietic stem/progenitor cell proliferation and differentiation. Together they suggest a theme of transcriptional regulation and RNA processing in hematopoietic cells, even though several terms are obsolete.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902035","count":1},{"id":"GO:1901532","count":1},{"id":"GO:0006919","count":1},{"id":"GO:0001193","count":1},{"id":"GO:1903758","count":1}]},{"hash":"877579170034349768","title":"Unknown","description":"The GO terms cover a wide range of processes (endosome size regulation, receptor recycling, glutamatergic transmission, Rho signaling, histone methylation, transcription regulation, and various cell cycle/DNA replication activities) with several terms marked obsolete, and there are no edges linking the proteins. This scattered set suggests no cohesive shared function for the cluster, so a specific label cannot be confidently assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0001881","count":1}]},{"hash":"2240887853139799839","title":"Translational initiation and reinitiation control","description":"The top GO terms cluster around regulation and mechanisms of initiating translation, including translation reinitiation and formation of preinitiation complexes, plus IRES-dependent viral initiation, suggesting the proteins function in controlling how ribosomes start translation. A couple of unrelated terms appear, but the dominant signal is translation initiation regulation.","confidence":"High","size":14,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006446","count":5},{"id":"GO:1901407","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0075525","count":4}]},{"hash":"965775801177583460","title":"Xenobiotic metabolism and redox detoxification","description":"This cluster groups proteins linked to degrading or transforming foreign compounds (camphor, vancomycin) and to redox regulation and detoxification (cellular oxidant detoxification, redox homeostasis, oxidation-reduction). While a few terms touch on development or immune regulation, the dominant themes point to detoxification and metabolic processing of xenobiotics, including retinoid metabolism (retinoic acid catabolic/biosynthetic processes). This supports a coherent functional theme around handling and neutralizing chemical stress.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019383","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0034653","count":2}]},{"hash":"2166175195514206080","title":"PARP-Mediated DNA Repair & Metabolic Signaling","description":"This cluster is dominated by GO terms linked to DNA repair and PARP activity, including lagging strand elongation, single strand break repair, DNA damage response, poly-ADP-ribosylation, and ATP generation from PAR. These points suggest a coherent theme around PARP-driven DNA repair and the associated metabolic consequences, with some peripheral terms (insulin signaling, axis specification) that appear less central to the core function. Confidence: Medium","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006273","count":1},{"id":"GO:0090298","count":1},{"id":"GO:0042769","count":1},{"id":"GO:0045191","count":1},{"id":"GO:1903376","count":1}]},{"hash":"274055716690775317","title":"Retroviral integration and proviral latency","description":"The GO terms point to genome integration, RNA-templated DNA synthesis, DNA recombination, and establishment of integrated proviral latency, all hallmark features of retroviral lifecycle and proviral latency. Additional terms about symbiont entry and host cell manipulation reinforce a virus\u2013host interaction theme. Overall, the cluster appears to represent retroviral genome integration and latency processes.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0046718","count":1},{"id":"GO:0007084","count":1},{"id":"GO:0043137","count":1},{"id":"GO:0039651","count":1}]},{"hash":"846491319567053907","title":"DNA replication, repair, and mitotic checkpoint signaling","description":"The GO terms point mainly to DNA replication processes (initiation, replication, preinitiation complex assembly) and mitotic DNA damage checkpoints (intra-S signaling) with a note on break-induced repair, suggesting a coherent cluster of replication and mitotic genome maintenance functions.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0007049","count":1},{"id":"GO:0006277","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0032508","count":1}]},{"hash":"2153325344141527955","title":"Plant lipid metabolism and sterol signaling","description":"The top GO terms are dominated by lipid-related processes (fatty acid beta-oxidation, oxylipin and jasmonic acid biosynthesis) and sterol transport/regulation, implying lipid metabolism and lipid-derived signaling in plants; ozone and toxic-substance responses suggest stress context, with a few development terms as ancillary notes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0010193","count":1},{"id":"GO:0033543","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0048443","count":1}]},{"hash":"1263990111661395707","title":"Metal ion transport and homeostasis","description":"This cluster centers on transport and regulation of metal ions (Zn, Cd, Co, Fe) across membranes and maintaining intracellular metal balance, including cadmium detoxification and zinc transport regulation.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":4},{"id":"GO:0071577","count":4},{"id":"GO:0006882","count":3},{"id":"GO:0006877","count":3},{"id":"GO:0061090","count":3}]},{"hash":"846382049971747014","title":"Unknown","description":"The GO terms are highly diverse, spanning polysaccharide catabolism, apoptosis (and its positive regulation), fungal ascospore formation, Schwann cell development, synaptic potentiation, angiogenesis, axonogenesis, G2/M cell cycle transition, and plant ABA signaling. With no clear shared function or pathway and no edges connecting proteins, there isn\u2019t a cohesive theme to name a specific functional cluster. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000272","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0014044","count":2},{"id":"GO:0043065","count":2}]},{"hash":"1614832981786016364","title":"Unknown","description":"These proteins have GO terms spanning mitophagy, carbohydrate and lipid catabolism, development, cell cycle regulation, and leptin response, with no clear shared function or pathway. The terms are heterogeneous and some are outdated or unrelated, indicating no cohesive theme for the cluster. Therefore, a single intuitive label cannot be assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":1},{"id":"GO:0006080","count":1},{"id":"GO:0030245","count":1},{"id":"GO:0046338","count":1},{"id":"GO:0046843","count":1}]},{"hash":"1538175125083668631","title":"mRNA Processing and Translation Regulation","description":"This cluster is dominated by GO terms on mRNA maturation and decay (deadenylation-dependent decay, splicing, polyadenylation) and by facets of translation control (translation termination/elongation, selenocysteine incorporation). Together they point to coordinated regulation of transcript maturation and protein synthesis, with a couple of outliers like viral genome replication or antibiotic response that may reflect stress-related responses rather than core function.","confidence":"High","size":13,"edges":11,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0019079","count":1},{"id":"GO:0006449","count":1}]},{"hash":"1068987539028328601","title":"ECM remodeling and organ morphogenesis","description":"Top terms show strong signals for collagen catabolic process and basement membrane disassembly, plus epithelial tube branching in lung morphogenesis, pointing to extracellular matrix remodeling underlying tissue and organ development. Other terms (Wnt regulation, thyroid hormone response, decidualization, T cell cytotoxicity) may reflect signaling or immune-context associations but do not outweigh the core remodeling/morphogenesis pattern.","confidence":"High","size":13,"edges":71,"triangles":218,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":7},{"id":"GO:0010813","count":7},{"id":"GO:0030574","count":7},{"id":"GO:0097067","count":7},{"id":"GO:0001913","count":7}]},{"hash":"1175504521852744255","title":"Neuronal signaling and dendrite morphogenesis","description":"This cluster shows strong signals for nervous system development, dendrite morphogenesis, and dopamine-related signaling (cellular response to dopamine), with JNK pathway regulation also linking to neural signaling. Some terms also reflect broader processes (cell cycle, protein stability, T cell signaling), but the dominant theme is neuronal development and signaling.","confidence":"Medium","size":13,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1903351","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0050771","count":2},{"id":"GO:0000186","count":2}]},{"hash":"262918599448295796","title":"Muscle differentiation and cytoskeletal remodeling","description":"The cluster shows strong representation of myoblast fusion, G1 to G0 transition in differentiation, and regulation of cytoskeleton organization, pointing to muscle cell differentiation and cytoskeletal remodeling as the core theme; other terms hint at broader tissue remodeling and metabolic signaling but do not override the dominant muscle-development signal.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":1},{"id":"GO:0060056","count":1},{"id":"GO:0019099","count":1},{"id":"GO:0070315","count":1},{"id":"GO:2000676","count":1}]},{"hash":"549182578611068306","title":"Diverse cellular stimulus responses","description":"This cluster's GO terms cluster around cellular responses to various stimuli (muscle activity, cadmium, ionomycin, glucose) plus related signaling and some cell-cycle/hormone\u2013related terms. The mix does not point to a single cohesive function, so a broad label describing varied stimulus responses is appropriate.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014850","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0032092","count":1},{"id":"GO:1904637","count":1},{"id":"GO:0007070","count":1}]},{"hash":"1172660829898676219","title":"Genome Regulation and Chromatin Dynamics","description":"The cluster's terms span RNA splicing and transcription start site control, ncRNA-mediated silencing, histone modification, and DNA replication/topology and damage tolerance. These functions collectively reflect genome regulation and chromatin state maintenance, rather than a single enzymatic role.","confidence":"Medium","size":13,"edges":66,"triangles":184,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0001178","count":7},{"id":"GO:0071441","count":7},{"id":"GO:0006269","count":7}]},{"hash":"1239523473414361882","title":"Toll signaling and innate immune activation","description":"The cluster centers on Toll pathway and immune-related GO terms, including Toll signaling, TLR9 signaling, macrophage activation, cytokine production regulation, and defense against Gram-positive bacteria, which point to Toll-mediated innate immunity. A dorsoventral axis specification term reflects Toll's developmental role in some species, which is compatible with the overall Toll-centric theme. Some plant-meristem terms appear as outliers, but the dominant signal is Toll-associated signaling and immune responses.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":5},{"id":"GO:0008063","count":5},{"id":"GO:1902350","count":5},{"id":"GO:0010080","count":5},{"id":"GO:0050830","count":5}]},{"hash":"755196996995271004","title":"RNA Processing and Translation Initiation Regulation","description":"These proteins cluster around post-transcriptional gene expression, with GO terms for mRNA splicing (via spliceosome), mRNA export from nucleus, mRNA maturation/processing (polyadenylation, splice site recognition), and control of translation initiation and reinitiation. The convergence of splicing, export, and initiation regulation suggests a functional module of RNA processing and translation control, despite a few outlier terms.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006378","count":6},{"id":"GO:0002188","count":6}]},{"hash":"2140987740574719964","title":"Unknown","description":"The GO terms are diverse (GPCR signaling, intracellular signaling, epithelial polarity, endothelial remodeling, cardiac depolarization, foam cell differentiation, and ADP-ribosylation), with no single cohesive function tying the cluster together, and there are no internal edges to reinforce a specific pathway.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0010845","count":2},{"id":"GO:1900827","count":2},{"id":"GO:0071642","count":2},{"id":"GO:0097497","count":2}]},{"hash":"1315464137389186194","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":4},{"id":"GO:1903883","count":3},{"id":"GO:0001519","count":3},{"id":"GO:2000637","count":3},{"id":"GO:0018032","count":3}]},{"hash":"83313050052373740","title":"Ran-mediated Nuclear Transport and RNA Export","description":"This cluster centers on nucleocytoplasmic transport and RNA trafficking, with terms for mRNA and tRNA export, NLS-bearing protein import, and Ran signaling, suggesting a cohesive role in nuclear-cytoplasmic transport and RNA processing. Peripheral terms like response to xenobiotic stimulus are less central to the main theme.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0031291","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0042176","count":1}]},{"hash":"1947480594780384295","title":"Mitotic Regulation and MAPK Signaling","description":"The cluster features GO terms tied to cell cycle and mitosis (cell cycle, mitotic sister chromatid biorientation) alongside negative regulators of kinase pathways (ERK cascade, cyclin-dependent kinase activity) and a tyrosine phosphatase activity. Kinetochore localization implies a mitotic function, while signaling regulation reflects control of pathways during division. Together these terms suggest proteins that coordinate cell cycle progression with MAPK signaling modulation.","confidence":"Medium","size":13,"edges":70,"triangles":210,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":9},{"id":"GO:0034501","count":7},{"id":"GO:0000200","count":7},{"id":"GO:0050860","count":7},{"id":"GO:0070373","count":7}]},{"hash":"771173497245570282","title":"Mitotic centrosome and DNA replication regulation","description":"Most of the top GO terms describe centrosome dynamics and mitosis (centrosome cycle, mitotic centrosome separation, mitotic cell cycle), together with DNA replication and kinetochore localization. This suggests a cluster of proteins coordinating cell cycle progression, chromosome replication, and spindle/kinetochore activities, with additional regulatory inputs such as negative regulation of CDK activity and positive Wnt signaling. The apoptotic term is peripheral but can be linked to cell fate decisions during division.","confidence":"High","size":13,"edges":11,"triangles":2,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007098","count":7},{"id":"GO:0007100","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0060044","count":7}]},{"hash":"1285332303665303929","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0000464","count":1},{"id":"GO:0043629","count":1},{"id":"GO:0000378","count":1},{"id":"GO:0006283","count":1}]},{"hash":"2289985583477093447","title":"Unknown","description":"The top GO terms span transcription, protein oligomerization, metabolism, cofactor biosynthesis, meiosis, cardiac electrical activity, and immune signaling, with several obsolete terms. There are no shared functions or coherent biological processes linking the proteins, and there are no interactions (Edges 0), so a meaningful common label cannot be determined.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0051291","count":1},{"id":"GO:0006558","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0043496","count":1}]},{"hash":"742725696443940353","title":"Developmental signaling and tissue differentiation","description":"The top GO terms cover diverse developmental processes across multiple tissues (thyroid gland development, layer formation in the cerebral cortex, myoblast fusion, brown fat differentiation) and related regulatory processes (cell-matrix adhesion, JNK signaling) plus cellular responses (dopamine). This points to a general theme of developmental differentiation and tissue specification rather than a single specific function. ","confidence":"Medium","size":13,"edges":19,"triangles":5,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030878","count":8},{"id":"GO:0001952","count":8},{"id":"GO:0048378","count":8},{"id":"GO:0048511","count":8},{"id":"GO:1903351","count":8}]},{"hash":"341824433150776632","title":"Golgi-ER vesicle transport and secretion","description":"Dominated by Golgi-related trafficking and secretion: Golgi ribbon formation, ER-to-Golgi and intra-Golgi vesicle transport, plus exocytic processes like mucus secretion and receptor insertion, indicating a secretory pathway cluster.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0090161","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0006888","count":1}]},{"hash":"1914144903268194301","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0000244","count":1}]},{"hash":"668675129691183581","title":"Glycolysis and Gluconeogenesis","description":"This cluster\u2019s top GO terms cluster around central carbohydrate metabolism: glycolytic process, gluconeogenesis, fructose metabolism, and related fluxes (e.g., lactate/pyruvate pathways) and even serine biosynthesis. While a couple of terms are unrelated noise, the dominant theme is sugar metabolism and energy production, justifying a label focused on glycolysis and gluconeogenesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060576","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0010666","count":1},{"id":"GO:0033133","count":1},{"id":"GO:0007585","count":1}]},{"hash":"1695165079383308227","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0070843","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1409524600090871764","title":"Unknown","description":"The top GO terms are scattered across metal stress response, cell cycle, neural/eye development, cilium-related processes, and various regulatory pathways, with some obsolete annotations. There isn\u2019t a clear, single biological theme tying these proteins together, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0022038","count":2},{"id":"GO:2000324","count":1},{"id":"GO:0090526","count":1}]},{"hash":"483366350971778025","title":"Unknown","description":"This cluster has no enriched GO terms, no interactions (Edges: 0; Triangles: 0; Max Degree: 0), and no clear shared function among the 13 proteins, so there is no coherent theme to assign. ReCIPE re-additions do not establish a common biology.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1884278434616523344","title":"Nucleolar rRNA transcription and mitotic cell cycle","description":"This cluster centers on nucleolar transcription of rRNA by RNA Polymerase I (and Pol III regulation) and transcription initiation, paired with mitotic cell cycle and cell division terms. This suggests a functional module linking ribosome biogenesis with cell cycle progression.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1903357","count":1}]},{"hash":"2181836305436891616","title":"Small GTPase Signaling in Neurons and Immunity","description":"The cluster centers on small GTPase\u2013mediated signaling (Ras, Rac) and its regulation, with terms for both neuronal contexts (postsynaptic density, neuron development) and immune functions (adaptive immune response). The combination suggests a group of proteins that modulate GTPase signaling across neural and immune systems.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0010954","count":1},{"id":"GO:0034136","count":1},{"id":"GO:0097107","count":1}]},{"hash":"2210013940409822655","title":"Innate Immune Signaling and Antiviral Response","description":"The top GO terms cluster around innate immune response, defense against viruses, and NF-kappaB signaling, indicating a shared function in immune activation and antiviral defense. While a few terms point to other processes (axonogenesis, muscle morphogenesis), the dominant theme is innate immune signaling and NF-kB pathway regulation, with glucocorticoid response reflecting stress-related modulation. Overall, the label captures the core function of the cluster.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2288039084332649207","title":"Neuronal development and synaptic organization","description":"The cluster is enriched for terms relating to brain development and neural connectivity\u2014forebrain radial glial cell differentiation, axon guidance, vesicle docking and maintenance of presynaptic active zones, and cell polarity. While other terms like epithelial adhesion and dopamine response are present, the dominant theme centers on neuronal development and synaptic structure/function, making this a representative label. ","confidence":"Medium","size":13,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0007107","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0048790","count":1}]},{"hash":"1565089450362600932","title":"Unknown","description":"The set includes GO terms spanning mitochondrial inheritance, lipid/glycolipid metabolism (unsaturated fatty acid biosynthesis, ergosterol metabolism, MIPC metabolism), nitrogen metabolism (nitrate assimilation, nitric oxide biosynthesis), calcium signaling (ER calcium concentration), and tissue-specific processes (sebaceous gland differentiation, CNS myelin maintenance), with no clear unifying function across proteins. Therefore no coherent functional label can be assigned.","confidence":"","size":13,"edges":11,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0032443","count":1}]},{"hash":"2069410330929435852","title":"Bacterial cell wall synthesis and division","description":"Top GO terms cluster around bacterial cell envelope biogenesis and division (peptidoglycan biosynthetic process, cell wall organization, regulation of cell shape, and cell cycle/division), suggesting the proteins participate in building/remodeling the cell wall and coordinating division. Some unrelated annotations appear, but the dominant signal supports a cell-wall\u2013related, division-focused cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0009252","count":2},{"id":"GO:0008360","count":2}]},{"hash":"598375850508399753","title":"Innate Immune Sensing and Dendritic Cell Activation","description":"Top GO terms indicate xenophagy, NOD2 and TLR9 signaling, proinflammatory cytokine production (IL-8, IL-18), and regulation of dendritic cell antigen processing/presentation, along with cell polarity and lamellipodium organization relevant to dendritic cell migration. Together they represent innate pathogen sensing driving dendritic cell activation and antigen presentation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904417","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0042228","count":1},{"id":"GO:0032621","count":1},{"id":"GO:0002606","count":1}]},{"hash":"633805415272815337","title":"Developmental Transcription Regulation","description":"GO terms emphasize DNA-templated transcription and regulation of transcription factor activity, along with signaling-related phosphorylation. The presence of heart, hippocampus, cerebellum, thyroid development, and other developmental processes points to a set of proteins involved in controlling gene expression during development across multiple tissues. The common thread is transcriptional regulation within developmental contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1986888903253735861","title":"Unknown","description":"The top terms span disparate biological areas (telomere maintenance, apoptosis, neural development, dopamine response, fat cell differentiation, innate immunity and LPS signaling), with no clear connectivity or cohesive function across the proteins. Because there is no single, representative theme linking these terms, a concise, meaningful label cannot be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032212","count":4},{"id":"GO:1903351","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0007409","count":3}]},{"hash":"194271796395566782","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016042","count":2},{"id":"GO:2000344","count":2},{"id":"GO:0052889","count":2},{"id":"GO:2000884","count":1},{"id":"GO:0016239","count":1}]},{"hash":"1403478026554940230","title":"TLR-Mediated Innate Immune Signaling and Interferon Response","description":"This cluster is dominated by GO terms tied to innate immune sensing and signaling via Toll-like receptors (TLR3, TLR8, TLR10), including responses to exogenous dsRNA, inflammatory response, and production of interferons (type II and IFN-\u03b2). These terms collectively point to a module of proteins involved in viral recognition and downstream interferon-driven immune activation. Some terms about zygotic axis specification and floral meristem growth appear non-specific or annotation noise, but the core signal is clearly TLR-linked innate immunity.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":10},{"id":"GO:0002322","count":10},{"id":"GO:0045078","count":10},{"id":"GO:0010080","count":10},{"id":"GO:0034166","count":10}]},{"hash":"915721544191034570","title":"Unknown","description":"The top terms are a mix of neuronal structure, ion channel activity, microtubule-based transport, and unrelated processes, with no coherent shared function across the cluster, so no meaningful single label can be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":1},{"id":"GO:0090419","count":1},{"id":"GO:0033624","count":1},{"id":"GO:0009688","count":1},{"id":"GO:0090282","count":1}]},{"hash":"1608931154295827897","title":"Innate Immunity and Autophagy","description":"Enrichment centers on innate immune signaling and inflammatory cytokine production, including NOD2 and Toll pathways, IL-8 and IL-18 production, and dendritic cell antigen processing/presentation. Additional links to xenophagy and cellular responses to chloroquine point to autophagy-related pathogen handling. A lone term on bone morphogenesis/axis development appears incidental. Overall, the cluster coalesces around innate immune activation with autophagy involvement.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":1},{"id":"GO:1904417","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0042228","count":1},{"id":"GO:0032621","count":1}]},{"hash":"1411992965649575479","title":"SNARE-regulated synaptic vesicle release","description":"This cluster is dominated by terms related to SNARE-mediated vesicle fusion, vesicle maturation, and neurotransmitter secretion, including negative regulation of SNARE assembly, synaptic transmission (GABAergic), and long-term synaptic depression, as well as Golgi vesicle fusion to target membranes. While there are a few outliers referencing platelet formation/aggregation and pigmentation regulation, the core signal ties to neuronal vesicle trafficking and synaptic signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":2},{"id":"GO:0048070","count":1},{"id":"GO:0032229","count":1},{"id":"GO:0070527","count":1},{"id":"GO:0048210","count":1}]},{"hash":"137737772954583941","title":"Cell Growth and Division Machinery","description":"This cluster is dominated by translation and ribosome biogenesis terms, plus centriole replication, all of which align with cellular growth and preparation for division. The budding apical bud growth term also supports a growth-focused theme. A few other terms (apoptotic process, responses to estrogen/ionomycin) may reflect broader signaling or context-specific cues, but the core signal points to a growth/mitotic program centered on protein synthesis and cell-cycle machinery.","confidence":"Medium","size":12,"edges":45,"triangles":95,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":2}]},{"hash":"442340160018971","title":"Ribosome biogenesis and cytokinesis","description":"This cluster is dominated by ribosome-related processes (ribosome biogenesis, cytoplasmic translation, ribosomal subunit biogenesis/export) and by cell division/cytokinesis terms (cell cycle, cell division, septum assembly), suggesting proteins involved in ribosome production along with division-related events.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0002181","count":3},{"id":"GO:0042274","count":3}]},{"hash":"1750909447406648331","title":"Ribosome Biogenesis and Cell Division","description":"The cluster shows a core theme around protein synthesis and cell proliferation, with terms for cytoplasmic translation, ribosome biogenesis, and ribosomal subunit export, alongside cell cycle, cell division, and septum assembly. While a few terms touch on energy transport, the dominant signals point to growth-related ribosome function and division processes.","confidence":"Medium","size":12,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0099132","count":1},{"id":"GO:0042777","count":1},{"id":"GO:0000747","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0000055","count":1}]},{"hash":"782596263646927462","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":1},{"id":"GO:0006356","count":1},{"id":"GO:0008033","count":1},{"id":"GO:1990258","count":1},{"id":"GO:0048254","count":1}]},{"hash":"1630778271962738720","title":"Ubiquitin-mediated proteolysis and cell cycle control","description":"This cluster is driven by ubiquitin-dependent processes: deubiquitination, SCF- and APC-mediated proteolysis, plus regulation of mitotic cell cycle transitions and Wnt pathway interactions; a few terms touch on immune signaling, but the core theme is proteostasis linked to cell cycle control.","confidence":"Medium","size":12,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0002862","count":5},{"id":"GO:0002223","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0031146","count":5}]},{"hash":"105318421462916065","title":"Ribosome biogenesis and RNA processing","description":"The cluster shows strong representation of SSU-rRNA maturation steps (tricistronic rRNA processing, ITS1 endonucleolytic cleavage, and RNA exon ligation) and related RNA processing activities, pointing to ribosome assembly and RNA maturation as a core theme. While there are also DNA replication and repair terms and an outlier developmental term, the dominant functional signal centers on ribosome biogenesis and RNA processing.","confidence":"Medium","size":12,"edges":33,"triangles":38,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0019079","count":8},{"id":"GO:0018144","count":8},{"id":"GO:0000462","count":8},{"id":"GO:0048701","count":8}]},{"hash":"20752421022767892","title":"Unknown","description":"These proteins are annotated with a highly heterogeneous mix of GO terms (hormone biosynthesis regulation, glycolytic process, antibiotic biosynthesis, dopamine metabolism/catabolism, tRNA wobble uridine modification, granulocyte differentiation, and capsule polysaccharide biosynthesis) with several obsolete terms. The cluster also has only one edge and no triangles, providing little evidence of a common functional theme. Therefore, there is no coherent function linking the members, so the cluster is best labeled Unknown with no confidence.","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046886","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0045964","count":2}]},{"hash":"1120307580723037220","title":"Unknown","description":"The GO terms for this cluster are highly diverse and weakly connected (stress granule disassembly, redox homeostasis, cAMP response, DNA recombination, renal water transport, etc.), with several obsolete terms and no clear overarching function. The sparse edges (max degree 2) suggest little cohesive biology linking the proteins, so a single descriptive label is not justifiable.","confidence":"","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":2},{"id":"GO:0007568","count":1},{"id":"GO:0045454","count":1},{"id":"GO:2001153","count":1},{"id":"GO:0006310","count":1}]},{"hash":"849480292566850521","title":"DNA Replication and Transcription Initiation","description":"This cluster is enriched for DNA replication processes (DNA replication, primer synthesis, unwinding) and transcription initiation at RNA polymerase II promoters, pointing to proteins involved in genome duplication and transcription start control. While there are ancillary terms related to stress responses and RNA quality control, the dominant theme remains DNA metabolism and transcription initiation, justifying this label.","confidence":"High","size":12,"edges":26,"triangles":21,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0001666","count":2},{"id":"GO:0006269","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0009432","count":2}]},{"hash":"759158541715765140","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903883","count":2},{"id":"GO:0001519","count":2},{"id":"GO:2000637","count":2},{"id":"GO:0018032","count":2},{"id":"GO:1903265","count":2}]},{"hash":"1392496033854358985","title":"Cytoskeletal Dynamics and Vesicle Trafficking","description":"The top GO terms point to cytoskeletal remodeling (microtubule severing, cell division) together with membrane trafficking (ER\u2013Golgi transport) and autophagy (autophagosome maturation), plus stress granule disassembly. This combination suggests a theme centered on how the cytoskeleton coordinates trafficking and degradation pathways under stress. Some terms (root development, viral genome replication) appear as outliers but do not redefine the core connection.","confidence":"Medium","size":12,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0035617","count":3},{"id":"GO:0048364","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0070414","count":2}]},{"hash":"1477741361095459953","title":"Endocytosis and vesicle trafficking regulation","description":"This cluster\u2019s top GO terms cluster around clathrin-dependent endocytosis, synaptic vesicle maturation, and actin cytoskeleton regulation (negative regulation of Arp2/3), which together point to a role in vesicle trafficking and cytoskeletal remodeling. Some surrounding terms (ERAD, APP catabolism, gastric acid secretion) appear obsolete or peripheral, suggesting noise rather than a core function. Overall, the dominant theme is endocytosis/vesicle trafficking with cytoskeletal control.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034316","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0016188","count":1},{"id":"GO:0006919","count":1}]},{"hash":"1778516343309044675","title":"Microtubule Cytoskeleton Dynamics","description":"The top GO terms overwhelmingly point to microtubule-based processes\u2014minus-end directed sliding, regulation of microtubule-based processes, axonemal depolymerization, maintenance of cytoskeleton polarity, and centrosome separation during mitosis. There are additional signals about neural structure and stress granule biology, which relate to microtubule networks in neurons and granule dynamics. Overall, a cohesive theme of microtubule organization and dynamics.","confidence":"High","size":12,"edges":24,"triangles":19,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":11},{"id":"GO:0035617","count":11},{"id":"GO:0031534","count":11},{"id":"GO:0032886","count":11},{"id":"GO:0036334","count":11}]},{"hash":"825851317943798630","title":"Unknown","description":"The GO terms are highly diverse, including meiotic recombination regulation, cardiac action potential depolarization, macrophage cytokine production, endothelial cell delamination, epithelial polarity establishment, foam cell differentiation, poly-ADP-ribosylation, and general intracellular signaling. With zero edges among the proteins and no clear shared pathway or function, there is no coherent theme to bind these proteins into a single interpretable cluster. Confidence in a meaningful label is None.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":1},{"id":"GO:1900827","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0090162","count":1}]},{"hash":"846724806696452873","title":"Cytokinesis and Cell Division","description":"This cluster is enriched for cell division terms, including GO:0051301 cell division and GO:1903501 positive regulation of mitotic actomyosin contractile ring assembly, pointing to roles in cytokinesis and mitotic progression. While other terms like glycogen metabolism, locomotion, and cell-cell adhesion also appear, they are less specific to division and may reflect broader multifunctionality or annotation noise across the proteins.","confidence":"Medium","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0031987","count":2},{"id":"GO:0005977","count":2},{"id":"GO:0060316","count":2}]},{"hash":"20995408213273962","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0070843","count":2},{"id":"GO:0070389","count":2}]},{"hash":"493775419618765703","title":"Fungal cell wall biosynthesis and mating","description":"The strongest terms are fungal-specific: beta-glucan biosynthesis for the cell wall and karyogamy involved in mating, which point to a fungal-physiology theme. Supporting terms about post-translational targeting, unfolded protein response, and chaperone-related refolding fit with secretory pathway and stress handling in fungal cells, while a few broader processes (DNA replication) are less specific. Overall, the cluster seems to group fungal cell wall biosynthesis with mating-related processes and related cellular stress responses.","confidence":"Medium","size":12,"edges":15,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016226","count":2},{"id":"GO:0070880","count":2},{"id":"GO:1902037","count":2},{"id":"GO:0000742","count":2},{"id":"GO:0070389","count":2}]},{"hash":"973802821073680203","title":"Unknown","description":"The GO terms span reproductive processes (sperm capacitation, FSH response), brain development (cerebral cortex development), and broad metabolic/stress-related processes (cholesterol biosynthesis, fatty acid oxidation, apoptotic/cytolysis, and response to toxic substances). There isn\u2019t a clear, shared function or pathway tying these terms together, so a concise, specific label isn\u2019t evident.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0045793","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0055114","count":4}]},{"hash":"1170966652080483767","title":"Vacuolar amino acid transport","description":"This cluster is dominated by GO terms for transmembrane transport of amino acids (lysine, histidine, tyrosine, serine) into and out of the vacuole, with an additional lysine-related transport term and a general ion transport term. Together they point to a set of vacuolar membrane transporters handling amino acids, a theme reinforced despite one noisy term about root cap development. ","confidence":"High","size":12,"edges":11,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901482","count":1},{"id":"GO:0089707","count":1},{"id":"GO:0006867","count":1},{"id":"GO:0090514","count":1},{"id":"GO:0089708","count":1}]},{"hash":"680746156057018565","title":"Toll/TLR Innate Immune Signaling","description":"The cluster\u2019s top GO terms are dominated by innate immune signaling, including Toll signaling, Toll-like receptor signaling, and lipopolysaccharide-mediated pathways, with accompanying cytokine production (e.g., IL-8). This strongly points to a core role in innate immune responses, even though a few terms suggest broader signaling contexts such as Wnt signaling and developmental axis specification.","confidence":"High","size":12,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008063","count":2},{"id":"GO:0042228","count":1},{"id":"GO:0007352","count":1},{"id":"GO:1904887","count":1},{"id":"GO:0034130","count":1}]},{"hash":"2104449521097530339","title":"Unknown","description":"The terms are highly diverse, including meiotic recombination regulation, cardiac membrane depolarization, macrophage inflammatory protein production, endothelial delamination, epithelial polarity establishment, foam cell differentiation, poly-ADP-ribosylation, intracellular signaling, and CDK activity regulation. Each term appears only once, and there is no dominant shared function or pathway linking the cluster, so a cohesive, intuitive label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":1},{"id":"GO:1900827","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0090162","count":1}]},{"hash":"544791697467900835","title":"Unknown","description":"Top terms span vesicular transport (ER-Golgi, endosome-Golgi), autophagy, immune signaling (TLR6, IL-8 production), and various development/ECM processes, with no clear cohesive function linking them. The cluster shows heterogeneous roles rather than a single shared pathway or process. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":1},{"id":"GO:0001501","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0016358","count":1},{"id":"GO:0006914","count":1}]},{"hash":"350613167199024617","title":"Photoreceptor Cilium Localization","description":"This cluster\u2019s top terms prominently point to cilium biology and photoreceptor outer segment localization (non-motile cilium assembly and protein localization to photoreceptor outer segment). These together suggest a shared role in ciliary structure and targeting within photoreceptor cells, even though some other terms are less related and may reflect background noise. ","confidence":"Medium","size":12,"edges":13,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1903546","count":1},{"id":"GO:0061087","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0021756","count":1},{"id":"GO:0060613","count":1}]},{"hash":"1780302562850245102","title":"Unknown","description":"The GO terms are highly heterogeneous (circadian rhythm, invasive growth in response to glucose limitation, protein heterooligomerization, signal transduction, cellular response to nitrogen, response to sucrose, pollen hydration, starch catabolic process, nail development, regulation of protein kinase activity) with only one instance per term and no clear shared function. The absence of a coherent theme or connectivity makes it impossible to assign a precise, representative label.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007623","count":1},{"id":"GO:0001403","count":1},{"id":"GO:0051291","count":1},{"id":"GO:0007165","count":1},{"id":"GO:0043562","count":1}]},{"hash":"802107274961258571","title":"Toll signaling and innate immune activation","description":"This cluster is dominated by terms tied to Toll signaling, TLR9 signaling, macrophage and dendritic cell activation, and cytokine production (IL-8), plus defense against bacteria, indicating a core function in innate immune signaling and immune cell activation. A few outlier terms related to development or chloroquine response appear, but the strongest signal centers on Toll-pathway\u2013mediated immune responses.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":12},{"id":"GO:0008063","count":12},{"id":"GO:1902350","count":12},{"id":"GO:0010080","count":12},{"id":"GO:0050830","count":12}]},{"hash":"767165364297954796","title":"RNA Processing and Nucleic Acid Repair with Redox Metabolism","description":"The top GO terms cluster around RNA metabolism (RNA catabolic process) and nucleic acid repair (ribonucleotide excision repair and related RNA hydrolysis), with accompanying redox-related processes (NADPH regeneration, NADP+ biosynthesis) and oxidative stress response. Some terms about glial proliferation/migration appear as outliers, suggesting tissue-specific regulation rather than core cluster function. Overall, the dominant theme is RNA processing/repair coupled with redox metabolism.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045717","count":2},{"id":"GO:1990516","count":1},{"id":"GO:0006401","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0006740","count":1}]},{"hash":"2250511277338975906","title":"Amino acid and cofactor biosynthesis cluster","description":"This group is enriched for multiple biosynthetic processes (alanine, histidine, lysine, biotin, menaquinone, poly-hydroxybutyrate) and related catabolic/oxidation-reduction activities, indicating a general metabolic biosynthesis theme rather than a single, specific pathway.","confidence":"Medium","size":12,"edges":10,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042853","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0000105","count":3}]},{"hash":"749419601448650984","title":"ER-Golgi Trafficking and Wnt Secretion","description":"The cluster is dominated by GO terms related to ER-to-Golgi transport, Golgi organization (ribbon formation, COPI coating), and protein retention in the ER lumen, along with regulation of Wnt protein secretion. This points to a cohesive module centered on the secretory pathway and vesicular trafficking, with Wnt signaling as a functional output; the development/behavior terms appear peripheral to this core trafficking theme.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":3},{"id":"GO:0090161","count":3},{"id":"GO:0006621","count":3},{"id":"GO:0061357","count":3},{"id":"GO:0002121","count":3}]},{"hash":"1728918258117608670","title":"Ciliary and flagellar motility and intraflagellar transport","description":"This cluster is dominated by GO terms related to cilium/flagellar movement and microtubule-based transport, including intraflagellar retrograde/anterograde transport, dynein arm assembly, and spindle localization. The presence of left-right symmetry determination further supports a ciliary/nodal function, tying these proteins to coordinated motility and transport within ciliary structures as well as related microtubule processes.","confidence":"High","size":12,"edges":15,"triangles":4,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0003341","count":1},{"id":"GO:0007018","count":1},{"id":"GO:1990048","count":1},{"id":"GO:0021670","count":1},{"id":"GO:0035721","count":1}]},{"hash":"959638857045690333","title":"Protein quality control and RNA processing","description":"The cluster includes GO terms tied to protein processing and quality control (deglycosylation, glycoprotein catabolic process, quality control for misfolded proteins) as well as RNA-level processing events (mRNA splicing, export, modification, and regulation of translation initiation). This suggests a broad theme of cellular quality control and processing across both protein and RNA pathways rather than a single, cohesive biochemical pathway. Therefore, a cautious label of \u201cProtein quality control and RNA processing\u201d is appropriate, with Medium confidence.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":1},{"id":"GO:0006516","count":1},{"id":"GO:0006515","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006446","count":1}]},{"hash":"206733079409755459","title":"Copper Homeostasis and Complex IV Assembly","description":"The cluster is dominated by terms about copper ion homeostasis and transport, plus one explicit term for respiratory chain complex IV assembly, pointing to a copper-dependent mitochondrial function. Additional redox-related terms support a redox/energy-production theme, while a few developmental or photoreceptor-related terms may be peripheral noise. Overall, the common thread is copper metabolism linked to mitochondrial respiration.","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0045494","count":1},{"id":"GO:0072358","count":1},{"id":"GO:0010196","count":1},{"id":"GO:0048738","count":1}]},{"hash":"299599328777441030","title":"Cell-cycle and trafficking regulators","description":"This cluster's terms revolve around cell division control (APC-dependent catabolic process, spindle/cytokinesis regulation) as well as intracellular trafficking and transport (COPII vesicle budding, nuclear pore localization) and cytoskeletal regulation (barbed-end actin capping) with growth signaling (TORC1). The convergence on cell-cycle control alongside transport and cytoskeleton indicates a theme of coordinating division with intracellular logistics.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031145","count":1},{"id":"GO:1904263","count":1},{"id":"GO:0050773","count":1},{"id":"GO:0010697","count":1},{"id":"GO:0090114","count":1}]},{"hash":"732088684084859527","title":"TLR and inflammasome signaling","description":"The top GO terms are dominated by innate immune signaling: Toll-like receptor pathways (TLR6 and TLR1), lipopolysaccharide signaling, detection of triacyl lipoproteptides, and cytokine-mediated signaling, along with NLRP3 inflammasome complex assembly. These indicate a core theme of innate immune sensing and inflammatory signaling, though a few terms (Wnt signaling, dopamine response, axis specification) are less central but contribute to broader signaling roles.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":1},{"id":"GO:1904027","count":1},{"id":"GO:0007352","count":1},{"id":"GO:1900227","count":1},{"id":"GO:1904887","count":1}]},{"hash":"1600024561090860865","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to ribosome production and function: cytoplasmic translation, translation, ribosome biogenesis, ribosomal subunit export from nucleus, and small/large subunit biogenesis, plus tRNA modification. The presence of cell cycle and cell septum assembly terms likely reflects coordination between growth/division and protein synthesis. Overall, these proteins appear to participate in ribosome assembly and the protein synthesis machinery. ","confidence":"High","size":11,"edges":33,"triangles":46,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:0002181","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0006400","count":4},{"id":"GO:0000747","count":4}]},{"hash":"969450332510606993","title":"Oxidative Stress Response and Calcium-Regulated Muscle Signaling","description":"This cluster is enriched for cellular oxidant detoxification, redox homeostasis, and glutathione metabolism, pointing to oxidative stress defense. It also includes terms related to calcium release and regulation of skeletal muscle contraction, suggesting calcium signaling in muscle function. Additional terms for glucocorticoid response, toxin catabolism, and DNA repair indicate broader stress adaptation and detoxification processes. Together these imply a cohesive theme centered on redox balance and calcium-mediated cellular responses, including muscle-related signaling under stress.","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":8},{"id":"GO:0045454","count":7},{"id":"GO:0009072","count":5},{"id":"GO:0060316","count":5},{"id":"GO:0006289","count":5}]},{"hash":"1315186100284943168","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007338","count":2},{"id":"GO:0048025","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0042273","count":2}]},{"hash":"462386611546834393","title":"DNA Damage Response and Repair","description":"The top GO terms cluster around DNA damage response and genome maintenance\u2014DNA repair, SOS response, DNA replication, and transcription regulation\u2014with some stress-related signals such as antibiotic response; a few obsolete terms are present, but the dominant pattern points to DNA damage response and repair.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006281","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0006465","count":1}]},{"hash":"1667788134478820525","title":"RNA methylation and protein modification cluster","description":"The cluster is dominated by GO terms for RNA modification (rRNA methylation, tRNA methylation, wobble uridine modification) and several protein modification reactions (peptidyl-lysine dimethylation, N-terminal peptidyl-glycine methylation, peptidyl-cysteine S-nitrosylation). While there are a few outlier terms such as lipopolysaccharide response and retinoic acid metabolism, the core signal points to methylation- and modification-related functions acting on both RNA and proteins, justifying this label as a cohesive theme.","confidence":"High","size":11,"edges":43,"triangles":80,"max_degree":10,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0031167","count":4},{"id":"GO:0002098","count":4},{"id":"GO:0030488","count":4},{"id":"GO:0055114","count":4}]},{"hash":"1937094808109556100","title":"Mitochondrial translation and ribosome maturation","description":"This cluster centers on translation-related processes and mitochondrial RNA/ribosome maturation, with terms like translation, regulation of translation, maturation of SSU-rRNA, and protein import into the mitochondrial matrix, hinting at a module for mitochondrial protein synthesis and ribosome biogenesis (with some noise from unrelated RNA splicing terms). Confidence: Medium","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0033119","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000462","count":1}]},{"hash":"2159992395142186145","title":"Oxidative Stress Response & Redox Homeostasis","description":"This cluster is dominated by GO terms related to managing oxidative damage and maintaining cellular redox balance, including protein repair, cellular oxidant detoxification, response to oxidative stress, ER stress response, and deglutathionylation. A few terms (e.g., viral process) appear incidental, but the core theme ties to redox regulation and oxidative stress responses.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030091","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0098869","count":1},{"id":"GO:0034599","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1189577905643470929","title":"DNA Repair and Recombination","description":"The cluster centers on DNA replication, recombination, and multiple repair pathways, including replication fork processing, SOS response, and DSB repair via sister chromatid exchange and synthesis-dependent strand annealing, indicating proteins functionally linked to DNA damage response and repair.","confidence":"High","size":11,"edges":37,"triangles":50,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:1990426","count":3},{"id":"GO:0007131","count":3},{"id":"GO:0072719","count":3}]},{"hash":"34014256020318070","title":"Neural development and synaptic organization","description":"The dominant GO terms point to brain development and neural differentiation (hippocampus development, forebrain radial glial differentiation), alongside axon guidance and maintenance of presynaptic active zone structure, indicating roles in neural circuit formation and synaptic architecture. Supporting terms like translation and sumoylation reflect general cellular processes that support these neuronal functions, while other terms are less central but not conflicting. Overall, the cluster reflects neural development and synaptic organization.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902236","count":3},{"id":"GO:0032258","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0016925","count":2}]},{"hash":"2273544269173122772","title":"Developmental signaling and apoptosis","description":"These proteins cluster around development- and signaling-related processes across multiple tissues. Top GO terms include nervous system development, skeletal muscle tissue development, thyroid gland development, and keratinocyte differentiation, supported by signaling pathways such as Wnt, Hippo, and B cell receptor signaling. The presence of apoptotic process and regulation of nuclear export suggests involvement in cell fate decisions and transcriptional regulation. Taken together, the cluster appears to represent regulators of developmental signaling with links to apoptosis.","confidence":"High","size":11,"edges":33,"triangles":38,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0006915","count":10},{"id":"GO:0046827","count":10},{"id":"GO:0060044","count":10},{"id":"GO:0090263","count":10}]},{"hash":"1670162065359118428","title":"Mitochondrial Protein Import and Quality Control","description":"Dominant GO terms center on mitochondrial processes\u2014protein import into the mitochondrial matrix, regulation of mitochondrial membrane permeability, and redox homeostasis\u2014along with misfolded protein transport and chaperone-assisted refolding, indicating mitochondrial protein homeostasis and quality control. A few outliers (cell cycle regulation, triglyceride biosynthesis) are present, but the core signal is mitochondrial function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000134","count":1},{"id":"GO:1903740","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0046902","count":1},{"id":"GO:0010867","count":1}]},{"hash":"878445777109561537","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0031204","count":1}]},{"hash":"142083424705136094","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":20,"triangles":16,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0007035","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006369","count":1}]},{"hash":"1254078513257803653","title":"Unknown","description":"The top GO terms span highly disparate processes (bacterial outer membrane assembly, methanol oxidation, membrane protein insertion, nonribosomal peptide biosynthesis, plant hormone regulation, chlorophyll biosynthesis, dendrite regeneration, and more) with no clear common function or pathway linking the cluster. With no edges or coherent functional theme, there is no confident single label to assign beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043165","count":1},{"id":"GO:0015946","count":1},{"id":"GO:0051205","count":1},{"id":"GO:0043041","count":1},{"id":"GO:0019482","count":1}]},{"hash":"28283190497022976","title":"Unknown","description":"The top GO terms are very diverse, spanning Gram-negative outer membrane assembly, various metabolic processes (methanol oxidation, beta-alanine metabolism), membrane protein insertion, and signaling pathways (cAMP/cGMP, receptor guanylyl cyclase). The mix includes several obsolete terms and lacks a cohesive shared function across the 11 proteins, making it unclear what unifying theme ties the cluster together.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043165","count":1},{"id":"GO:0015946","count":1},{"id":"GO:0051205","count":1},{"id":"GO:0043041","count":1},{"id":"GO:0019482","count":1}]},{"hash":"802800223929425079","title":"Telomere and cell cycle regulation","description":"The Top Terms include negative regulation of cyclin-dependent protein serine/threonine kinase activity and positive regulation of telomere maintenance via telomerase, as well as telomere capping, which together point to control of genome stability and cell cycle progression. While other terms cover broader processes (mRNA processing, cell migration, adipogenesis), the strongest recurring signal relates to telomere maintenance and cell cycle regulation, suggesting a cluster centered on genome stability and proliferation control.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":2},{"id":"GO:0032212","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1886543764096644771","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007595","count":2},{"id":"GO:0001666","count":2}]},{"hash":"2209436098882588966","title":"Mitochondrial Transport and Dynamics","description":"The top GO terms point to mitochondria-focused processes: transport of metabolites and ions across mitochondrial membranes (pyridoxal phosphate, alpha-ketoglutarate, manganese), regulation of mitochondrial membrane potential, the malate-aspartate shuttle, and mitochondrial fission, plus related energetic contexts like adaptive thermogenesis and insulin signaling, all indicating roles in mitochondrial metabolism and dynamics.","confidence":"High","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":9},{"id":"GO:0031921","count":9},{"id":"GO:0015742","count":9},{"id":"GO:0006828","count":9},{"id":"GO:0051881","count":9}]},{"hash":"1288163266045335459","title":"ER-Golgi and Endosome-to-Golgi Transport","description":"The top GO terms cluster around vesicle trafficking between the ER, Golgi, and endosomes (ER-Golgi, Golgi-ER retrograde, and endosome-to-Golgi transport), indicating intracellular protein trafficking as the core function; other terms may reflect secondary annotations or multifunctional proteins.","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0034498","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0048790","count":1}]},{"hash":"905640807927329131","title":"Nuclear RNA Processing and Telomere Regulation","description":"This cluster centers on nuclear-level control of gene expression and genome stability: mRNA processing, regulation of protein export from the nucleus, and telomere maintenance/capping. Intracellular signaling and differentiation terms suggest supporting roles in cellular responses and development, with a few outliers likely due to annotation breadth. Overall, a coherent theme around nuclear processes and telomere regulation with some signaling context.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0045444","count":2}]},{"hash":"854769607568265638","title":"Unknown","description":"Top Terms are not provided, so there is no evident shared GO function among the 11 proteins. Without functional annotations, I cannot infer a common theme, so the safest label is Unknown; the cluster density suggests a potential interaction module, but it lacks a functional tie-in.","confidence":"","size":11,"edges":17,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"1451458029735374631","title":"Unknown","description":"The GO terms are highly heterogeneous, ranging from metabolic processes (pyruvate biosynthesis, gluconeogenesis) and post-translational modification (peptidyl-tyrosine sulfation) to signaling (glucocorticoid pathway, morphine response) and structural/cellular processes (non-motile cilium assembly, APC-dependent catabolic process). There isn\u2019t a single clear theme tying these functions together for this set of proteins, so a concise, generic label is most appropriate.","confidence":"","size":11,"edges":17,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":3},{"id":"GO:0042866","count":3},{"id":"GO:1902391","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0090526","count":2}]},{"hash":"481055273252189260","title":"Histone modification and chromatin assembly","description":"Most terms describe histone methylation, acetylation, and nucleosome assembly, indicating a cluster focused on chromatin regulation. A few terms (hippocampus development, IL-6 production, dexamethasone response) are peripheral or potential annotation noise, but do not override the dominant chromatin-related theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0034772","count":1},{"id":"GO:0071549","count":1},{"id":"GO:0034773","count":1}]},{"hash":"2190889896552942291","title":"Protein quality control and autophagy","description":"The cluster shows strong signals for autophagosome maturation, chaperone-mediated protein complex assembly, and oxidation-dependent protein catabolic processes, all pointing to cellular protein homeostasis and degradation pathways. While other terms touch on metabolism or RNA export, the dominant theme is protein quality control through autophagy and chaperone systems.","confidence":"Medium","size":11,"edges":9,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0019079","count":5},{"id":"GO:0097352","count":5},{"id":"GO:0001319","count":5},{"id":"GO:0090261","count":5}]},{"hash":"1530015784756663143","title":"Embryonic development and tissue patterning","description":"The terms center on developmental processes: left-right pattern formation, placenta and trophoblast differentiation, endocrine system development, and epithelial-to-mesenchymal transition in heart development, all suggesting embryogenesis and tissue morphogenesis. Other terms related to RNA processing or transcription regulation appear ancillary, not core to a single function. Therefore, the cluster can be named Embryonic development and tissue patterning.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0060707","count":1}]},{"hash":"1175904267741299610","title":"Organ Morphogenesis and Signaling","description":"These proteins appear linked to developmental processes across multiple tissues, with top GO terms covering morphogenesis in heart (trabecula), lens, and midbrain, plus signaling pathways (adrenergic receptor signaling, cAMP-related signaling). While there are also immune differentiation terms, the overall pattern supports a theme of developmental signaling and organ morphogenesis.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0010667","count":1},{"id":"GO:0061384","count":1},{"id":"GO:0032825","count":1},{"id":"GO:0032252","count":1}]},{"hash":"256242528362359843","title":"TLR-Mediated Interferon Signaling","description":"The cluster is dominated by GO terms for Toll-like receptor signaling (TLR3, TLR8, TLR10), dsRNA sensing, inflammatory response, and interferon/IFN-\u03b2 production, indicating innate immune sensing and antiviral cytokine signaling. A few terms related to development (zygotic axis specification, floral meristem growth) appear as minor outliers, but the central theme is clearly TLR-driven immune responses.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":2},{"id":"GO:0002322","count":2},{"id":"GO:0045078","count":2},{"id":"GO:0010080","count":2},{"id":"GO:0034166","count":2}]},{"hash":"176853713781217403","title":"Golgi-ER vesicle trafficking and membrane transport","description":"The top GO terms point to vesicle movement between the ER and Golgi, intra-Golgi and retrograde transport, Golgi ribbon formation, and delivery of proteins to the plasma membrane, with some related secretory processes like mucus secretion. Together these indicate a cohesive function in organizing the secretory pathway and directing vesicular trafficking through the Golgi\u2013ER system.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0090161","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006888","count":1}]},{"hash":"1636531138407180778","title":"Unknown","description":"There are no GO terms or network connections for this cluster (no edges/triangles; Top Terms empty), so a shared function cannot be inferred.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"250174083860313617","title":"Membrane lipid catabolism and endomembrane trafficking","description":"The GO terms cluster around membrane lipid turnover (phosphatidylethanolamine and phosphatidylinositol catabolic processes) and components of the endomembrane system (protein localization to endosome, vacuole organization, xenobiotic transport), suggesting a functional theme of lipid remodeling linked to vesicle trafficking rather than a single enzymatic activity.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046338","count":3},{"id":"GO:0046843","count":3},{"id":"GO:0031161","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0043085","count":1}]},{"hash":"1485984443480915275","title":"Protein Translation and Regulation","description":"Enriched GO terms cluster around core translation processes (translation, initiation, termination, elongation, and selenocysteine incorporation) and cytoplasmic translation regulation, with supporting terms for mRNA decay. This suggests the proteins form a cohesive group involved in the machinery and control of protein synthesis, rather than a single specialized pathway. Some outliers (glial proliferation, antibiotic response) may reflect broader contexts where translation is modulated.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0006415","count":4},{"id":"GO:0006413","count":4},{"id":"GO:0000288","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1341128431811096509","title":"DNA damage response and chromatin regulation","description":"The cluster shows strong signals for DNA damage response and repair (SOS response, DNA damage tolerance, double-strand break repair via SDSA) together with transcriptional control and chromatin-related processes (RNA polymerase II transcription termination, start-site regulation, nucleosome positioning, heterochromatin maintenance, histone acetylation), suggesting a module where DNA damage signaling intersects with transcription regulation and chromatin state.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":5},{"id":"GO:0009432","count":4},{"id":"GO:0016584","count":4},{"id":"GO:0045003","count":4},{"id":"GO:0006301","count":4}]},{"hash":"716147144724645421","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":33,"triangles":54,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":2},{"id":"GO:0000462","count":1},{"id":"GO:1900745","count":1},{"id":"GO:2000623","count":1}]},{"hash":"1635453898119833890","title":"Cytoplasmic Translation and Translational Regulation","description":"The cluster is dominated by GO terms related to cytoplasmic translation, general translation, and regulation of translation/elongation, including tRNA modification. This suggests a cohesive theme centered on the protein synthesis machinery and its control, with a few outliers peripherally present.","confidence":"High","size":10,"edges":41,"triangles":90,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0046632","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0006400","count":1}]},{"hash":"1829164297951680695","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000472","count":3}]},{"hash":"424502073114780079","title":"RNA processing and splicing regulation","description":"This cluster centers on post-transcriptional control of gene expression, with GO terms for mRNA splicing (spliceosome, alternative splicing), mRNA export, mRNA modification, and regulation of translational initiation, as well as poly(A) tail regulation, indicating a cohesive group of proteins involved in RNA processing and splicing regulation. Some terms like blastocyst formation seem incidental rather than core to the cluster\u2019s function.","confidence":"High","size":10,"edges":21,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0006406","count":2},{"id":"GO:1902625","count":2}]},{"hash":"501732973656887152","title":"Cell Cycle and Gene Expression","description":"This cluster is enriched for cell cycle and division terms, along with core gene expression processes such as transcription, translation, and RNA processing/decay (including nuclear export of ribosomal components and regulation of cytoplasmic translation). The slight presence of a proviral latency term is an outlier; overall the proteins appear to form a module coordinating cell cycle progression with transcription and translation machinery.","confidence":"Medium","size":10,"edges":14,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0001300","count":3},{"id":"GO:0000056","count":3},{"id":"GO:0075713","count":2}]},{"hash":"1165185328422281383","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0031100","count":2},{"id":"GO:2000255","count":2}]},{"hash":"1920673778240626070","title":"Unknown","description":"The terms span DNA repair, telomere maintenance, metabolism, growth, and signaling with no dominant shared process, so there isn\u2019t a cohesive theme to label a specific function for this cluster. Thus, Unknown with no confidence in a unified label.","confidence":"","size":10,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006298","count":1},{"id":"GO:0032092","count":1},{"id":"GO:0071902","count":1},{"id":"GO:0010105","count":1},{"id":"GO:0045793","count":1}]},{"hash":"564080212111035683","title":"Redox detoxification and glutathione metabolism","description":"Dominant terms point to detoxification of reactive species and maintenance of redox balance, centered on glutathione metabolism and toxin catabolism. While a few terms touch on DNA repair and calcium signaling, the core theme is oxidative stress response and redox-homeostasis\u2013driven detoxification. ","confidence":"Medium","size":10,"edges":39,"triangles":81,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0009407","count":3},{"id":"GO:0009072","count":3}]},{"hash":"277108306953839524","title":"Skeletal Muscle Ca2+ Handling and EC Coupling","description":"Based on the top GO terms, the cluster is dominated by calcium ion transport and regulation in skeletal muscle, including import into the sarcoplasmic reticulum, ER calcium concentration, T-tubule organization, Ca2+-dependent exocytosis, and muscle relaxation. This points to a cohesive theme of excitation-contraction coupling and calcium signaling in muscle cells. Some outlier terms (lipopolysaccharide biosynthesis, otolith mineralization) may reflect annotation noise but do not detract from the core calcium/muscle theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0007049","count":2},{"id":"GO:1990036","count":1},{"id":"GO:0032470","count":1},{"id":"GO:0045299","count":1}]},{"hash":"1573409781745511806","title":"Fungal Cell Wall Biosynthesis","description":"The strongest signals are GO:0009272 (fungal-type cell wall biogenesis) and GO:0006048 (UDP-N-acetylglucosamine biosynthetic process), which point to fungal cell wall construction and its GlcNAc-derived components. Other terms seem more miscellaneous (lipid metabolism, guard cell morphogenesis, obsolete biosynthesis terms), suggesting a primary theme but with noise. Overall, the cluster most coherently maps to fungal cell wall biosynthesis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006071","count":1},{"id":"GO:0034478","count":1},{"id":"GO:0030643","count":1},{"id":"GO:0010442","count":1}]},{"hash":"2021523558517827835","title":"Nuclear DNA replication and chromatin assembly","description":"The cluster is dominated by GO terms for DNA replication, CENP-A\u2013containing chromatin assembly, DNA-templated transcription, and cell division, pointing to a core nuclear program of genome duplication and chromosome maintenance. Some peripheral terms (microtubule severing, ER-Golgi transport, and even viral genome replication) likely reflect related cell-cycle activities or data noise, but the central theme is nuclear DNA processing and chromatin organization.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0019079","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0061641","count":3}]},{"hash":"1563673737246022415","title":"Nuclear transcription and DNA replication","description":"The cluster\u2019s top GO terms center on DNA-level processes (DNA replication; DNA-templated transcription) and regulation of nuclear transport/export, suggesting a core shared theme of nuclear gene expression and DNA metabolism; other terms appear more peripheral or context-specific noise.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048240","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0046827","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0033160","count":4}]},{"hash":"1068025922314104690","title":"Mitochondrial translation and Complex IV assembly","description":"The cluster is dominated by mitochondrial-related functions: mitochondrial translation and assembly of the respiratory chain Complex IV (cytochrome c oxidase), along with copper ion transport/homeostasis, which is essential for Complex IV maturation. Redox homeostasis also supports mitochondrial function, reinforcing a mitochondrial-centric theme. A few items (oocyte construction, viral genome replication) appear as outliers or noise, but do not override the core mitochondrial signal.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0006878","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0007308","count":1},{"id":"GO:0008535","count":1}]},{"hash":"290387435308434919","title":"Unknown","description":"The terms cover diverse processes\u2014from nuclear transcription and DNA replication to ER-Golgi transport, ER stress and oxidative stress responses, lipid biosynthesis, and even neuronal signaling\u2014spanning multiple cellular contexts, with no clear single function tying the proteins together. Therefore no cohesive label can be assigned.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0009103","count":2}]},{"hash":"230787005620079738","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":40,"triangles":90,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071405","count":1},{"id":"GO:0046706","count":1},{"id":"GO:0006256","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0046712","count":1}]},{"hash":"552382859213440800","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA processing (splicing, mRNA processing, gene silencing), rRNA maturation, ribosome assembly, and chromatin remodeling, suggesting a shared role in RNA metabolism and ribosome biogenesis; the remaining terms appear as outliers and do not define a cohesive alternative theme.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0042255","count":1},{"id":"GO:0000393","count":1},{"id":"GO:0071035","count":1}]},{"hash":"1300308749395209430","title":"One-carbon metabolism and nucleotide biosynthesis","description":"The top GO terms cluster around serine/glycine metabolism and folate-related reactions (L-serine biosynthesis/catabolism, tetrahydrofolate response) that feed one-carbon units into nucleotide synthesis pathways (dTMP and purine biosynthesis) and methylation processes. This points to a cohesive theme of folate-dependent one-carbon metabolism powering nucleotide production and related methylation, with ancillary signals related to translation regulation and interferon response reflecting broader cellular states.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":4},{"id":"GO:0034340","count":3},{"id":"GO:0017148","count":3},{"id":"GO:0019264","count":3},{"id":"GO:0032259","count":3}]},{"hash":"1490003129374316736","title":"Neural Development and Synaptic Plasticity","description":"This cluster predominantly reflects nervous system development and synaptic function, highlighted by terms such as axonogenesis, Schwann cell development, long-term potentiation, and visual perception. Although a few terms touch on unrelated processes (myoblast fusion, angiogenesis, cell cycle), the common thread is neural development and synaptic connectivity.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007520","count":6},{"id":"GO:0010800","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0007409","count":6}]},{"hash":"804489018230612640","title":"Neural Development and Synaptic Signaling","description":"The set is enriched for neural development and synaptic functions (axonogenesis, Schwann cell development, visual perception, and long-term potentiation), indicating a cluster tied to neural differentiation and plasticity; additional terms like myoblast fusion, angiogenesis, and cell-cycle regulation suggest broader developmental signaling that can intersect with neurodevelopment, but the strongest pattern centers on neural growth and synaptic modulation.","confidence":"Medium","size":10,"edges":11,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007520","count":6},{"id":"GO:0010800","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0007409","count":6}]},{"hash":"116339218334937401","title":"Neuronal synapse formation and signaling","description":"The top GO terms cluster around synaptic vesicle exocytosis, presynaptic active zone maintenance, axon guidance, brain development, and dopaminergic signaling, pointing to a cohesive theme of neuronal synapse formation and neurotransmission. Some terms are broader or non-neuronal, but the predominant signal is neuronal synaptic function.","confidence":"High","size":10,"edges":12,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0048790","count":2}]},{"hash":"1149657896490915382","title":"Unknown","description":"The top terms are a diverse mix of transcription, metabolism, development, and signaling processes with no clear common function, and several terms are obsolete or unrelated, so there is no cohesive theme to label the cluster meaningfully.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030878","count":1}]},{"hash":"1537199087251666546","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":29,"triangles":32,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0046825","count":3},{"id":"GO:0070843","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0031204","count":3}]},{"hash":"1812553713278483887","title":"Ubiquitin-proteasome\u2013driven protein quality control","description":"The cluster centers on protein quality control and ubiquitin-mediated pathways: nuclear proteostasis by the UPS, protein ubiquitination, chaperone-assisted refolding, and ERAD, with accompanying vesicle trafficking roles (SNARE disassembly, MVB assembly) that tie into protein turnover and quality control. Some cell cycle terms appear, but the dominant signal is proteostasis and ubiquitin-dependent degradation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0071630","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1352204533342181402","title":"Unknown","description":"The listed terms span viral infection processes, host-virus interactions, general cellular functions, and even a plant developmental term, with no evident common pathway or biological theme across the proteins. The absence of edges and the disparate GO terms suggest this cluster does not reflect a single coherent function, warranting an Unknown label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071492","count":1},{"id":"GO:0019061","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0048453","count":1},{"id":"GO:0044829","count":1}]},{"hash":"1398888055748656109","title":"Unknown","description":"The protein set shows an extremely diverse mix of GO terms (zinc homeostasis, adiponectin signaling, vascular wound healing, tail spike morphogenesis, NF-kappaB regulation, cytolysis) with no shared function or interaction pattern (no edges, max degree 0), so there isn\u2019t a cohesive theme to name beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006882","count":1},{"id":"GO:0033211","count":1},{"id":"GO:0061042","count":1},{"id":"GO:1990522","count":1},{"id":"GO:1901223","count":1}]},{"hash":"1492081139142508522","title":"Mitotic cell division and ER-Golgi transport","description":"This cluster is dominated by mitosis-related GO terms (mitotic cell cycle, mitotic spindle assembly, cell division, cell population proliferation) and vesicle trafficking between the endoplasmic reticulum and Golgi (ER-Golgi transport and retrograde Golgi-ER transport), with ribosome biogenesis also represented, suggesting a coordinated module of cell proliferation and secretory pathway activity. Nervous system development terms appear but are less central. ","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007420","count":3}]},{"hash":"2257014145940344204","title":"Unknown","description":"The GO terms span a mix of developmental processes (multicellular organism development, placenta development), protein interactions (homooligomerization, tetramerization), core cellular processes (DNA replication, cell division), and stress/response pathways (apoptosis, prostaglandin response). There is no single cohesive function or pathway that ties these terms together, suggesting the cluster lacks a clear, interpretable common theme beyond a general involvement in diverse cellular and developmental roles.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0070389","count":2}]},{"hash":"1715165455757342287","title":"Unknown","description":"The Top Terms cover immune signaling (T cell receptor pathway, interferon and IL-5 regulation), xenobiotic response, vesicle trafficking and nucleocytoplasmic transport (endosomal vesicle fusion, ribosomal export), basic processes (cell division, filopodium assembly), and sensory/metabolic terms (smell, dopamine metabolism). This wide mix lacks a single cohesive biological function or pathway that clearly defines the cluster, so a specific label is not supported. ","confidence":"","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1536813735374830141","title":"Mitotic Cell Division and Cytoskeletal Dynamics","description":"The top GO terms cluster around progression through mitosis (cell division, mitotic cycle, G2/M transition) with key roles in spindle dynamics and cytoskeletal organization (microtubule nucleation, Arp2/3-mediated actin nucleation). While a couple of terms are tangential ( xenobiotic response, skin development), the dominant signal is mitotic cell division coupled with cytoskeletal remodeling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0036265","count":3},{"id":"GO:2000601","count":2}]},{"hash":"649040348725559895","title":"Unknown","description":"The terms point to a mix of development, cell adhesion and membrane/lipid processes, plus mitochondrial function, but several are obsolete and there is no single clear theme tying the proteins together. This suggests either heterogeneity or outdated annotations, so no confident cohesive label can be assigned.","confidence":"","size":10,"edges":9,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0019233","count":2},{"id":"GO:1901585","count":1},{"id":"GO:0001302","count":1},{"id":"GO:2000049","count":1}]},{"hash":"416172236007948358","title":"TLR/Toll signaling and innate immune activation","description":"The top GO terms cluster around Toll/TLR signaling, macrophage/dendritic cell activation, and cytokine production (including IL-8) in response to bacterial defense, indicating a coherent theme of innate immune signaling and inflammatory responses, despite a couple plant-related terms appearing as potential noise.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":10},{"id":"GO:0008063","count":10},{"id":"GO:1902350","count":10},{"id":"GO:0010080","count":10},{"id":"GO:0050830","count":10}]},{"hash":"299017832989220648","title":"Neural development and synaptic plasticity","description":"This cluster is centered on neural development and synaptic regulation. Top terms point to cortical layer formation, neuron maturation, long-term synaptic potentiation, and dopamine signaling, with JNK pathway regulation also present. A few terms mention other tissues (thyroid, adipose), but the dominant signal is brain development and synaptic plasticity.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0060291","count":9},{"id":"GO:0030878","count":8},{"id":"GO:0001952","count":8},{"id":"GO:0048378","count":8},{"id":"GO:0048511","count":8}]},{"hash":"1932609665662332590","title":"Chromosome condensation and sister chromatid cohesion","description":"This cluster centers on mitotic/meiotic chromosome condensation and cohesion, including maintenance and loading of cohesin, plus related DNA replication and chromatin organization terms, suggesting proteins involved in chromosome architecture and genome stability.","confidence":"High","size":10,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070058","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070550","count":2}]},{"hash":"1472826346217687092","title":"Diverse carbon-source catabolism and NADPH regeneration","description":"The top GO terms predominantly describe catabolic processes for various carbon sources (formate, L-alanine, D-galactarate, 6-sulfoquinovose, D-gluconate, valine biosynthesis) and NADPH regeneration, suggesting a metabolic cluster focused on nutrient processing and redox balance. A single term for stimulatory C-type lectin receptor signaling appears incidental noise rather than a core feature. Overall, the cluster seems cohesive around diverse substrate catabolism and NADPH production.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0002223","count":2},{"id":"GO:0042183","count":2},{"id":"GO:0006740","count":2},{"id":"GO:0019322","count":2},{"id":"GO:0055114","count":2}]},{"hash":"587393157591619029","title":"Cell Signaling and Polarity Regulation","description":"The cluster appears to group proteins involved in intracellular signaling and regulation of cell architecture, as highlighted by GO:0035556 (intracellular signal transduction) and GO:0010745 (establishment of epithelial cell polarity). Additional terms point to tissue remodeling and context-specific signaling in endothelial and cardiac settings (GO:0090162, GO:1900827) and to immune signaling and post-translational modification (GO:0071642, GO:0070212), suggesting a broader theme of signaling-driven control of cell behavior and polarity rather than a single narrow process.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":1},{"id":"GO:1900827","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0090162","count":1}]},{"hash":"1989021015753695785","title":"Protein trafficking and stress response","description":"The top GO terms cluster around intracellular transport and protein handling under stress: ER-Golgi vesicle transport, autophagosome maturation, stress granule disassembly, protein processing, and microtubule severing, suggesting a focus on cellular quality control and trafficking during stress. Some terms appear unrelated (viral genome replication, centromere assembly), likely representing noise. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0070414","count":1},{"id":"GO:0034214","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0051013","count":1}]},{"hash":"1926602367279520050","title":"Unknown","description":"The top GO terms span animal development, plant metabolism, signaling, and epigenetic processes with no shared function, and there is no observed connectivity among the proteins (no edges, triangles, or co-regulated terms). This suggests no coherent functional cluster, so the label is Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0000132","count":2},{"id":"GO:0015996","count":1},{"id":"GO:2000124","count":1},{"id":"GO:1905344","count":1}]},{"hash":"1000638953991826958","title":"Unknown","description":"The GO terms span neuronal signaling (glutamatergic synaptic transmission), endosomal trafficking (endosome size regulation, receptor recycling), transcription/chromatin aspects (DNA-templated transcription regulation, histone methylation), and diverse developmental processes (retina layer formation, muscle relaxation). The lack of a single coherent function and presence of obsolete terms suggest no clear common theme linking these proteins, so a concise, representative label cannot be determined.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0001881","count":1}]},{"hash":"671995477015752037","title":"mRNA decay and translational repression","description":"These proteins show a clear enrichment for post-transcriptional RNA regulation: deadenylation-dependent decay, decapping, and processing-body (P-body) assembly, all key steps in mRNA turnover and translational repression. While a transcription elongation term appears among the terms, the dominant theme across the cluster is mRNA stability and control of translation, with some broader signaling-related terms appearing less central. Given the focused set of post-transcriptional processes, this label captures the main function represented by the cluster. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0000290","count":1},{"id":"GO:0010606","count":1},{"id":"GO:0031087","count":1}]},{"hash":"1506236095155521569","title":"Stress-responsive transcription and protein quality control","description":"This cluster combines signals of transcriptional activity (DNA-templated transcription) with multiple aspects of protein maintenance under stress (protein repair, ER stress response, redox/homeostasis, deglutathionylation), suggesting a coordinated cellular response to stress affecting both gene expression and protein quality control.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030091","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0018401","count":2}]},{"hash":"2127389587537333681","title":"Regulation of cell differentiation","description":"The top GO terms point to both muscle-related differentiation (skeletal muscle, myotube, cardiac lineage) and other lineages (Sertoli, monocyte), with several entries about regulatory control of differentiation. While a few terms touch on apoptosis or chromatin processes, the common thread appears to be modulation of differentiation across multiple cell types, rather than a single specific function. This justifies a label centered on differentiation regulation as the core theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010667","count":1},{"id":"GO:0010735","count":1},{"id":"GO:0060008","count":1},{"id":"GO:0010832","count":1},{"id":"GO:0030263","count":1}]},{"hash":"1581454829949851970","title":"Dopaminergic Neuron Function and Development","description":"The top GO terms center on dopamine signaling and neuronal development\u2014dopaminergic synaptic transmission, dopaminergic neuron differentiation, dopamine metabolic process, neuron projection development, and neuron cellular homeostasis\u2014pointing to a coherent theme of dopaminergic neuron function. A few terms (unfolded protein response, vasoconstriction in ischemia, symbiont entry, and endocannabinoid signaling regulation) are less connected but do not override the dopaminergic core.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001963","count":1},{"id":"GO:0071542","count":1},{"id":"GO:0002014","count":1},{"id":"GO:0042417","count":1},{"id":"GO:0006986","count":1}]},{"hash":"1051655255122975922","title":"Neuronal synaptogenesis and signaling","description":"The cluster is characterized by GO terms centered on synapse assembly, commissural axon guidance, trans-synaptic signaling, and synaptic plasticity, suggesting proteins involved in neural connectivity and synaptic communication. A few development terms outside the neural context appear, but the dominant theme is neuronal synapse formation and signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0015705","count":1},{"id":"GO:0030878","count":1},{"id":"GO:0048546","count":1}]},{"hash":"2040400479884688484","title":"Nuclear transcription and ribosome biogenesis","description":"The proteins cluster around multiple transcription-related GO terms (RNA Pol II/III transcription, RNA-templated transcription, and nucleolar RNA Pol I\u2013driven rRNA transcription) and a ribosome biogenesis term, suggesting a common role in nuclear transcriptional machinery and ribosome production. Some chromatin-regulation and apoptosis-related annotations appear, but the prevailing theme centers on transcription and ribosome assembly in the nucleus.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0046826","count":2},{"id":"GO:0006366","count":1}]},{"hash":"193872399586646675","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning differentiation in various tissues, development, chromatin and metabolism, with several obsolete terms, giving no single shared function. Therefore no coherent theme. ","confidence":"","size":9,"edges":31,"triangles":54,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":2},{"id":"GO:0040015","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0021591","count":1},{"id":"GO:0006348","count":1}]},{"hash":"1319587308640285606","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":33,"triangles":66,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:1901407","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0006446","count":4}]},{"hash":"68864464163156419","title":"RNA processing and translation regulation","description":"These proteins show a clear tilt toward RNA metabolism and control of protein synthesis, with GO terms for translation, positive regulation of cytoplasmic translation, translational elongation, and translational fidelity, alongside mRNA decay and spliceosome-related processing. While a few terms touch on neuronal signaling or muscle activity, the dominant theme is RNA processing and translation regulation, justifying this label.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":1},{"id":"GO:0006412","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0045901","count":1},{"id":"GO:1990416","count":1}]},{"hash":"303381709074820169","title":"Calcium Ion Homeostasis and Transport","description":"Most terms describe calcium ion homeostasis, calcium transmembrane transport, and calcium-dependent processes (e.g., ER calcium regulation and neurotransmitter exocytosis), with additional signals of broader metal ion transport (copper, cadmium) and calcium-associated mineralization. This combination points to a core function in calcium signaling and ion balance as the cluster's theme.","confidence":"High","size":9,"edges":25,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":2},{"id":"GO:0099132","count":1},{"id":"GO:0032470","count":1},{"id":"GO:0045299","count":1},{"id":"GO:1903233","count":1}]},{"hash":"1469335677702062432","title":"Chromatin Organization and Heterochromatin Formation","description":"Proteins here are linked to chromatin assembly during DNA replication, DNA repair, and transcription regulation, with multiple terms pointing to heterochromatin formation at centromeric/pericentromeric regions and silenced mating-type loci. This indicates a cohesive theme of chromatin state maintenance and transcription control, rather than cytosolic processes, justifying a label focused on chromatin organization and heterochromatin formation.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006335","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0045899","count":1},{"id":"GO:0006261","count":1}]},{"hash":"624331063067965131","title":"Microtubule Dynamics and Centrosome Regulation","description":"This cluster is dominated by GO terms related to microtubule cytoskeleton organization, polarity, and dynamics, including minus-end directed sliding, axonemal depolymerization, and regulation of microtubule-based processes, as well as mitotic centrosome separation and centrosome-related events. While there are neuron- and stress granule-related terms present, they are compatible with microtubule-associated transport and structure in neurons and stress responses. Overall, the shared theme is control of microtubule dynamics and centrosome function.","confidence":"High","size":9,"edges":30,"triangles":50,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":9},{"id":"GO:0035617","count":9},{"id":"GO:0031534","count":9},{"id":"GO:0032886","count":9},{"id":"GO:0036334","count":9}]},{"hash":"257800551002033382","title":"Unknown","description":"The GO terms span xenobiotic response, lung development, metabolism, translation control, glucocorticoid signaling, locomotion, cell adhesion, and actomyosin dynamics, with no single cohesive function tying all terms together; thus there isn\u2019t a clear cluster theme to label confidently.","confidence":"","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0030324","count":3},{"id":"GO:0006530","count":2},{"id":"GO:0006450","count":2},{"id":"GO:2000324","count":2}]},{"hash":"381071933595802231","title":"Egg Chamber Follicle Epithelium Polarity and Adhesion","description":"The top GO terms point to insect egg chamber biology, notably adhesion between follicle cells and maintenance of polarity in the follicular epithelium, which are key for egg chamber morphogenesis. Additional glycosylation-related terms may reflect extracellular matrix and surface glycoproteins involved in this tissue. Overall, the cluster centers on epithelial organization during egg chamber development.","confidence":"Medium","size":9,"edges":17,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007299","count":2},{"id":"GO:0010493","count":2},{"id":"GO:0001744","count":2},{"id":"GO:0048354","count":2},{"id":"GO:0075015","count":2}]},{"hash":"1128604544335887971","title":"Spliceosome-Mediated Splicing and Translational Initiation Regulation","description":"The cluster is dominated by GO terms related to mRNA splicing via the spliceosome and regulation of translational initiation, including preinitiation complex formation, translation reinitiation, and splice-site recognition. This points to a cohesive role in RNA processing and control of translation initiation, with a minor association to transcription termination and development (blastocyst formation).","confidence":"High","size":9,"edges":9,"triangles":2,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006378","count":4}]},{"hash":"2114933435770453696","title":"Neural and Embryonic Development with Transcription","description":"The top GO terms cluster around neural and embryonic development (forebrain development, neural tube closure, skeletal system development, multicellular organism development) and transcription (DNA-templated transcription, transcription regulation), pointing to proteins involved in developmental programs that govern gene expression. Other terms such as glucose metabolism and stress responses (ER stress-induced apoptosis, cadmium ion response) may reflect ancillary roles or cross-talk with metabolism and cellular stress, but the dominant signal is developmental regulation and transcriptional control. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006006","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1190762052689424497","title":"Neural development and endocrine differentiation","description":"The GO terms point to core transcriptional and DNA replication processes coupled with tissue development signals across neural and endocrine lineages: cortex layer formation, neuron maturation regulation, thyroid gland development, and brown fat differentiation. This pattern suggests a broad developmental program governing neural development alongside endocrine/adipose differentiation, rather than a single specific pathway.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006260","count":8},{"id":"GO:0030878","count":7},{"id":"GO:0001952","count":7},{"id":"GO:0048378","count":7}]},{"hash":"2059586288611282994","title":"Fatty acid oxidation and ketogenesis","description":"This cluster centers on lipid metabolism and energy homeostasis, highlighted by fatty acid beta-oxidation, ketone body biosynthesis and catabolism, and related processes in liver and adipose tissue, especially under fasting or hormonal signals. The presence of adipose and liver development terms, along with responses to starvation and hormone signals, supports a cohesive lipid- and ketone-focused functional module.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":5},{"id":"GO:0060612","count":4},{"id":"GO:0032385","count":4},{"id":"GO:0046952","count":4},{"id":"GO:0001889","count":4}]},{"hash":"194678563346983923","title":"Signaling pathways governing cell fate and differentiation","description":"This cluster shows enrichment across signaling and fate-determining processes, including transcriptional regulation, apoptosis, dopaminergic synaptic signaling, PI3K/AKT and Wnt pathway modulation, protein phosphorylation, and differentiation (notably keratinocyte differentiation). The common theme is intracellular signaling cascades that govern survival, growth, and cell fate decisions across tissues, suggesting a broad role in cellular decision-making rather than a single pathway or process.","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0001963","count":6},{"id":"GO:0051897","count":6},{"id":"GO:0032435","count":6}]},{"hash":"1341978549856943080","title":"Neural development and signaling","description":"Most of the top GO terms point to neural development and connectivity\u2014axon guidance, forebrain radial glial differentiation, and maintenance of presynaptic active zone structure\u2014together with broader signaling and cell-interaction processes (Rab signal transduction, epithelial adhesion, epidermal growth factor catabolic process, androgen receptor signaling). This suggests a cluster centered on developmental signaling that shapes neural circuits and cell contacts. A few terms (mating projection growth regulation, sprouting angiogenesis) reflect broader developmental signaling themes across tissues but still fit the general category of developmental signaling.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0048790","count":4},{"id":"GO:0007411","count":4},{"id":"GO:0090136","count":4}]},{"hash":"1508122648161281729","title":"Redox-Linked Metabolism and Nitrogen Fixation","description":"The protein set shows a motif around redox biology (oxidation-reduction, ferredoxin metabolism) with related metabolic pathways (formate, phenylacetate) and a notable nitrogen fixation term, plus transport and xenobiotic/detox responses. This suggests a bacterial cluster centered on redox-balanced metabolism and nitrogen handling rather than a single, narrow pathway.","confidence":"Medium","size":9,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006814","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0009636","count":2}]},{"hash":"102644201198711139","title":"Neural development and synaptic trafficking","description":"The top GO terms capture brain-related processes such as axon guidance, maintenance of presynaptic active zones, and forebrain radial glial differentiation, plus neuronal signaling (dopamine response and androgen signaling). Supporting terms involve endosomal vesicle fusion, ubiquitination, filopodium assembly, and aggrephagy, all of which relate to neuronal protein turnover, trafficking, and cytoskeletal remodeling during neuron development and synapse formation. Overall, these terms point to a coherent theme of neural development and synaptic organization.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0034058","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0035973","count":2},{"id":"GO:0048790","count":2}]},{"hash":"765868381933984413","title":"Unknown","description":"These nine proteins have a highly heterogeneous set of GO terms, including RNA polymerase assembly (I/II/III) and transcription elongation, protein folding, and tubulin complex assembly, but also plant hormone regulation and immune-related terms (T cell homeostasis, lymph node development) and cellular conjugation. The mix of distinct processes does not point to a single coherent function or pathway, so a specific, representative label cannot be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990113","count":1},{"id":"GO:0031137","count":1},{"id":"GO:1990115","count":1},{"id":"GO:1990114","count":1},{"id":"GO:0007021","count":1}]},{"hash":"1071896280454622823","title":"Chloroplast Photosynthesis and Photoprotection","description":"The cluster shows strong enrichment for GO:0015979 photosynthesis, GO:0010196 nonphotochemical quenching, and GO:1902600 proton transmembrane transport, all core to light-dependent energy capture in chloroplasts and protection against excess light. This provides a coherent theme of photosynthetic machinery and photoprotective regulation. Additional terms like carbazole and toluene catabolic processes and CMP-N-acetylneuraminate metabolism appear less connected to photosynthesis and may reflect broader or cross-annotated functions in some organisms, so the primary label remains photosynthesis-related.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046232","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0015979","count":2},{"id":"GO:0042203","count":2}]},{"hash":"395217443478142785","title":"Magnesium and Cobalt Ion Transport","description":"Top GO terms show transmembrane transport of Mg2+ and Co2+, including a mitochondrial Mg2+ transport term, suggesting a membrane ion-transport cluster centered on magnesium (with cobalt as a related metal).","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903830","count":1},{"id":"GO:0006824","count":1},{"id":"GO:0045016","count":1}]},{"hash":"241213687315195763","title":"Notch-regulated developmental patterning","description":"The terms cluster around tissue patterning and development, with multiple entries related to imaginal disc leg segmentation, ovarian follicle development, and intestinal epithelial development, plus regulation of Notch signaling and compartment pattern specification. This suggests the proteins collaborate in signaling-guided pattern formation during development, particularly in contexts where Notch signaling modulates tissue organization. Confidence is moderate given the mix of specific developmental terms and Notch-related regulation.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055016","count":1},{"id":"GO:0045747","count":1},{"id":"GO:0016267","count":1},{"id":"GO:0032092","count":1},{"id":"GO:0036011","count":1}]},{"hash":"790142296040661966","title":"Synaptic Membrane Assembly and Acetylcholine Catabolism","description":"This cluster shows a clear emphasis on synaptic organization, with both presynaptic and postsynaptic membrane assembly terms, plus acetylcholine catabolic process in the synaptic cleft, suggesting a function in synapse structure and neurotransmitter turnover. There are other mixed signals ( xenobiotic and glucocorticoid responses, and unrelated metabolic terms), but the strongest shared theme centers on synaptic membranes and neurotransmitter catabolism.","confidence":"Medium","size":9,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0097104","count":2},{"id":"GO:0015705","count":2},{"id":"GO:0008285","count":2}]},{"hash":"195083605951908710","title":"TNF\u2013NF-\u03baB signaling and apoptosis","description":"This cluster is dominated by terms related to tumor necrosis factor signaling, NF-\u03baB activation, JNK regulation, and regulation of apoptotic processes, along with ubiquitination. These together strongly point to inflammatory signaling and cell survival/death control. A few terms (histone catabolic, X chromosome dosage compensation) appear ancillary or noisy, but the core signal centers on TNF/NF-\u03baB\u2013mediated responses and apoptosis regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903762","count":1},{"id":"GO:0033209","count":1},{"id":"GO:0036205","count":1},{"id":"GO:0009048","count":1},{"id":"GO:1903265","count":1}]},{"hash":"1650902612834869758","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0031204","count":1}]},{"hash":"2278708733941840646","title":"Unknown","description":"There are no interactions within this cluster (Edges: 0, Triangles: 0) and the top GO terms span very diverse processes (bone resorption; actin nucleation; DNA repair; aging; Golgi-ER transport; COPII budding; cell fusion; forebrain development; mRNA splicing; rRNA maturation). This lack of a common functional theme suggests no coherent function group, so the label is Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":2},{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0006890","count":1}]},{"hash":"1760323603473173189","title":"Developmental Signaling and Differentiation","description":"The top GO terms point to signaling pathways (Wnt, Hippo) that regulate development and tissue growth, along with downstream processes like cell fate specification, differentiation (keratinocytes, thyroid), and regulation of cell-matrix adhesion. Other terms (apoptosis, rhythmic processes) can be part of developmental remodeling, and ion transport may reflect general cellular activity during development. Overall, the cluster appears to be governed by developmental signaling and differentiation processes rather than a single isolated function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0060044","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0006813","count":6},{"id":"GO:0030216","count":6}]},{"hash":"1163756023564723866","title":"Translational machinery and cotranslational targeting","description":"The set is dominated by GO terms for translation (translation, translational initiation, translational elongation, cytoplasmic translation, selenocysteine incorporation) and SRP-dependent cotranslational protein targeting to the membrane, suggesting a cluster of translation-related components and their membrane-targeting role. A few outliers like mRNA decay, iron transport, antibiotic response, and glial proliferation are present but do not override the main theme of protein synthesis and membrane targeting.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0098707","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0045901","count":1}]},{"hash":"127151413669205194","title":"Fungal Septation and Polarity","description":"The GO terms cluster around regulated phosphorylation, budding/polar growth, and septation-related events (initiation signaling and septum digestion after cytokinesis), consistent with coordinated fungal cell division and polarity control.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042327","count":1},{"id":"GO:2000100","count":1},{"id":"GO:0007118","count":1},{"id":"GO:0031031","count":1},{"id":"GO:0000920","count":1}]},{"hash":"1162462363739784444","title":"Unknown","description":"The GO terms are very diverse and span stress responses, development, and signaling with no clear shared function, making it inappropriate to assign a cohesive label. A concise, representative function cannot be determined from these terms alone.","confidence":"","size":9,"edges":14,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1904845","count":1},{"id":"GO:1902177","count":1},{"id":"GO:0008365","count":1},{"id":"GO:0045453","count":1},{"id":"GO:0050665","count":1}]},{"hash":"1461671638682493976","title":"Cardiac membrane potential regulation and ion transport","description":"The top GO terms center on regulation of membrane depolarization, sodium ion transmembrane transporter activity, and cardiac muscle cell action potential, suggesting a cardiac electrophysiology theme. Additional terms about protein localization to the plasma membrane and ER exit fit with membrane trafficking. Some terms (gluconeogenesis, xenobiotic response) are less aligned but may reflect broader cellular contexts or annotation noise. Overall, the cluster most coherently matches cardiac membrane potential and ion transport processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":2},{"id":"GO:0035690","count":2},{"id":"GO:1900825","count":1},{"id":"GO:2000649","count":1},{"id":"GO:0090004","count":1}]},{"hash":"2155740952287387250","title":"Amino acid and heme biosynthesis","description":"There\u2019s a clear emphasis on amino acid biosynthesis (alanine, aspartate, lysine) and related metabolism (oxaloacetate, heme), suggesting this cluster centers on amino acid and cofactor biosynthesis. Some terms like fruit ripening and lipoprotein transport hint at broader metabolism but do not override the primary theme.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006107","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0019878","count":1},{"id":"GO:0006783","count":1},{"id":"GO:0006523","count":1}]},{"hash":"57678053194868979","title":"Unknown","description":"The top GO terms cover a wide and unrelated set of processes (endosome size regulation, glutamatergic synaptic transmission, Rho signaling, histone methylation, receptor recycling, transcription regulation, calcium-channel activity, DNA-nuclear envelope interactions, heart morphogenesis, and vitellogenesis) with no shared pathway or strong protein-protein connectivity (no edges, no triangles). This scattered functional profile suggests there isn\u2019t a coherent, single-cluster theme to assign a specific, high-level label.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051036","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0001881","count":1}]},{"hash":"2300186052304217417","title":"Toll-like signaling and macrophage cytokine production","description":"Based on the GO terms, the cluster centers on innate immune signaling and inflammatory responses, with multiple entries for Toll signaling (GO:0008063), Toll-like receptor signaling (GO:0034162), macrophage activation (GO:0042116), and regulation of cytokine production (GO:0002730, GO:0045416), including IL-8. While a couple terms relate to plant development (meristem regulation) or other processes, the strongest, repeated signals point to TLR-mediated immune responses and cytokine regulation. Confidence: High","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":1},{"id":"GO:0008063","count":1},{"id":"GO:1902350","count":1},{"id":"GO:0010080","count":1},{"id":"GO:0050830","count":1}]},{"hash":"469474898383421829","title":"Meiotic spindle assembly and microtubule organization","description":"The GO terms cluster around microtubule nucleation, spindle assembly, and organization during meiosis (e.g., meiotic spindle organization, centrosome duplication, spindle assembly in female meiosis II, microtubule organization), along with related processes like cortical microtubule arrangement and cell polarity. This suggests a cohesive function in organizing the meiotic spindle and microtubule dynamics. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045450","count":1},{"id":"GO:0051298","count":1},{"id":"GO:0090063","count":1},{"id":"GO:0051415","count":1},{"id":"GO:0007058","count":1}]},{"hash":"2073386620182793458","title":"mRNA decay and translation regulation","description":"The top GO terms are heavily centered on post-transcriptional control: deadenylation-dependent decay, poly(A) tail shortening, and translation, indicating a core function around RNA stability and protein synthesis regulation. A few other terms (glial/germline development, DNA damage response) may reflect broader associations or annotation noise, but the dominant signal points to mRNA turnover and translational control.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000288","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0071549","count":1},{"id":"GO:0048136","count":1}]},{"hash":"1143519763290319902","title":"Synaptic vesicle trafficking and neurotransmission regulation","description":"Top terms point to neuronal synaptic function, with synaptic vesicle maturation, neurotransmitter secretion, and regulation of synaptic plasticity suggesting a vesicle/neuronal signaling theme; other terms (GTPase regulation, membrane repair) fit within signaling and membrane dynamics, while a few outliers (nitrogen fixation, ribophagy) may reflect noise or broad functionality. Overall, the cluster appears to group proteins involved in synaptic vesicle trafficking and neurotransmission regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0071451","count":1},{"id":"GO:0009399","count":1},{"id":"GO:0051725","count":1}]},{"hash":"1620554357621143530","title":"Cell division and organelle inheritance","description":"The dominant GO terms point to mitosis- and cytokinesis-related processes (spindle orientation, membrane addition at the division site) and related organelle localization and cellular remodeling (cell migration/extension, secretory trafficking). While translation and ribosomal RNA processing appear less specific, the core signals cluster around cellular division and inheritance of organelles, justifying this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0000448","count":1},{"id":"GO:0003094","count":1}]},{"hash":"2186373563925905654","title":"Membrane transport of nutrients and ions","description":"This cluster centers on transmembrane transport activities for a variety of substrates, including nitrate/nitrite, xylose, sodium-dependent organic cations, and potassium ions, plus related sugar response and carbohydrate metabolism signals. The common thread is nutrient and ion transport across membranes, with a minor note of host-interaction signaling among the terms.","confidence":"Medium","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":1},{"id":"GO:0071332","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0052106","count":1},{"id":"GO:0060731","count":1}]},{"hash":"906455832203199400","title":"Stress Response and Translation Regulation","description":"This cluster combines stress-related processes (starvation, oxidative/routine detoxification, hydrogen peroxide) with components of the protein synthesis machinery (cytoplasmic translation, threonyl-tRNA aminoacylation) and regulatory phosphorylation, suggesting a theme where stress signaling modulates translation. The estradiol response and ppGpp-related term add some variability, but the core connection remains stress response linked to translation control.","confidence":"Medium","size":8,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042594","count":2},{"id":"GO:0032355","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0098869","count":2}]},{"hash":"277741334299639160","title":"Unknown","description":"The top GO terms cover nucleotide and thiamine metabolism, a signaling event (PKA activation), and a stress/defense response (antibiotic). With no dominant shared function and only single-term representation, there is no cohesive theme to label the cluster beyond Unknown.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009117","count":1},{"id":"GO:0034199","count":1},{"id":"GO:0006772","count":1},{"id":"GO:0046677","count":1}]},{"hash":"1773613154433093906","title":"Unknown","description":"The listed GO terms span ribosome biogenesis, mRNA decay, snoRNA processing, chromosome condensation, protein kinase activation, and pollen sperm cell differentiation. This diversity provides no single coherent function unifying the eight proteins, suggesting the cluster does not reflect a specific shared process. Therefore an Unknown label is appropriate.","confidence":"","size":8,"edges":16,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0034965","count":1}]},{"hash":"1439288879058599707","title":"Oogenesis RNA processing and axis formation","description":"The set centers on RNA processing and translational control in oogenesis and early embryo development, with axis specification and blastocyst formation as key developmental terms. DNA replication and insulin signaling are present but less central.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0007310","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0001825","count":1}]},{"hash":"1050401974066894540","title":"Unknown","description":"The top GO terms span diverse, seemingly unrelated processes (DNA-templated transcription; multiple biosynthetic pathways like lipopolysaccharide, wax, ergosterol, and secoisolariciresinol; plus immune-related processes such as B cell chemotaxis and cytolysis). With only one edge and no clear shared functional theme, there isn\u2019t a coherent function that ties these proteins together, so Unknown with None. ","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006541","count":4},{"id":"GO:0019835","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0019878","count":3}]},{"hash":"1509010033819057244","title":"Unknown","description":"The terms span RNA modification (tRNA wobble, tRNA methylation), ribosome export, mitochondrial transcription, and diverse stress/metabolic processes (xenobiotic response, tellurium, biotin biosynthesis, aging, nodulation), with no single cohesive function tying them together, so a clear, representative label cannot be defined.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":1},{"id":"GO:0046690","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0001300","count":1},{"id":"GO:0019919","count":1}]},{"hash":"1793238696521243623","title":"Neural development and synaptic function","description":"Top terms emphasize brain development (GO:0007420), forebrain radial glial differentiation (GO:0021861), axon guidance (GO:0007411), and synaptic machinery (GO:2000300, GO:0048790), suggesting a cluster centered on neural development and presynaptic/synaptic regulation. A few terms (translation, epithelial adhesion, mating projection regulation, androgen signaling) are less representative but do not override the dominant neural theme. ","confidence":"Medium","size":8,"edges":25,"triangles":39,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":2},{"id":"GO:0007420","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0048790","count":1}]},{"hash":"2160075658614235390","title":"Potassium Ion Transport and Membrane Potential","description":"Based on the GO terms, this cluster is dominated by potassium ion movement (import/export, transport) and intracellular potassium homeostasis, plus a term about membrane depolarization in AV node cells, indicating a shared role in electrophysiology and ion balance. Some terms touch development and immune-related processes, but the strongest and most coherent signal is potassium transport and membrane potential regulation.","confidence":"High","size":8,"edges":14,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097623","count":3},{"id":"GO:1990573","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0030007","count":2}]},{"hash":"77988146253872083","title":"Ciliary Transport and Ciliogenesis","description":"The top GO terms cluster around intraciliary transport and assembly of cilia (intraciliary retrograde transport; motile and non-motile cilium assembly), with ER-to-Golgi vesicle transport supporting the broader cellular trafficking context. While a few terms (transcription, antigen processing) are less connected, the dominant signal points to ciliogenesis and ciliary trafficking as the cluster's main function.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0000132","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0035721","count":2},{"id":"GO:0070262","count":2}]},{"hash":"1982456790276242082","title":"DNA replication and chromatin regulation","description":"This cluster is dominated by GO terms for DNA replication and the cell cycle (e.g., DNA replication, mitotic DNA replication, and cell cycle) as well as subtelomeric heterochromatin formation, suggesting a core theme of genome duplication and chromatin maintenance during division. While some terms are obsolete or less obviously connected (e.g., eggshell chorion gene amplification), the strongest signals point to replication-associated chromatin regulation. The lack of observed edges implies these proteins may share functional themes rather than direct interactions, or that interaction data are sparse for this set.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0070389","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1939211781101296964","title":"Unknown","description":"Top terms span plant signaling (strigolactone response, secondary shoot formation), microbial metabolism (menaquinone and biotin biosynthesis, beta-ketoadipate and hydrocarbon catabolism), enzyme modification (C-terminal demethylation), and redox processes, with no single shared function linking them. The cluster has no edges and the GO terms point to disparate processes, so a clear functional label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000124","count":3},{"id":"GO:1990577","count":3},{"id":"GO:0009234","count":3},{"id":"GO:1902348","count":3},{"id":"GO:0046272","count":3}]},{"hash":"1617012275337820936","title":"Galactose-Driven Carbohydrate Metabolism","description":"The cluster terms are dominated by galactose- and carbohydrate-metabolism: glycolytic processing from galactose, D-galacturonate and galactitol metabolism, carbohydrate phosphorylation, and GDP-L-fucose salvage, with a galactose-regulated transcription term also present. While a couple of terms point to the mevalonate pathway and cholesterol biosynthesis, they are less represented, so the core theme centers on galactose-linked carbohydrate processing.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061623","count":2},{"id":"GO:0000435","count":2},{"id":"GO:0046396","count":2},{"id":"GO:0046835","count":2},{"id":"GO:0019402","count":2}]},{"hash":"1038867805092680010","title":"Metabolic stress responses and translation regulation","description":"Top GO terms suggest metabolism (uracil catabolic process; nitrogen utilization) and stress responses (response to toxic substance; response to salt), with a single term for negative regulation of translation, which can occur under stress. Some organ-development terms (kidney, lung development) and obsolete terms are low-count or likely artifacts. Overall, the cluster appears to center on metabolic processes intertwined with stress response and translational control, hence this label. ","confidence":"Low","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006212","count":2},{"id":"GO:0019740","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0001822","count":1},{"id":"GO:0030324","count":1}]},{"hash":"1495870465693783791","title":"Cuticle-Associated Glycosylated Proteins","description":"The terms point to larval chitin-based cuticle development and protein glycosylation (O-linked via mannose and O-GlcNAcylation), suggesting a link to cuticle-related proteins that may be glycosylated. However, with only single-term support, the connection is weak and the label is tentative.","confidence":"Low","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008363","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0097370","count":1}]},{"hash":"548973438092170367","title":"Neural development and axon guidance","description":"The top GO terms cluster around neuronal development and connectivity: interneuron migration (subpallium to cortex), forebrain radial glial differentiation, and axon guidance. Additional terms for translation and presynaptic active zone maintenance point to synapse formation and protein synthesis in maturing neurons. Dopamine response and androgen receptor signaling reflect neuromodulatory pathways that modulate neural development, while epithelial adhesion and tight junction terms can relate to neural tissue organization. Overall, this cluster represents neural development and connectivity processes.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0048790","count":1},{"id":"GO:0007411","count":1},{"id":"GO:0090136","count":1},{"id":"GO:0021861","count":1}]},{"hash":"919997868946797641","title":"Mitochondrial Metabolism and Dynamics","description":"The terms cluster around mitochondrial function: transport of metabolites into mitochondria (alpha-ketoglutarate, malate-aspartate shuttle, pyridoxal phosphate), ion and membrane potential regulation (manganese transport; mitochondrial membrane potential), membrane remodeling (mitochondrial membrane fission), and apoptosis-related mitochondrial changes, plus links to adaptive thermogenesis and insulin signaling. This suggests proteins involved in mitochondrial energy metabolism and structural/dynamic regulation rather than a single isolated process.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":1},{"id":"GO:0031921","count":1},{"id":"GO:0015742","count":1},{"id":"GO:0006828","count":1},{"id":"GO:0051881","count":1}]},{"hash":"468912873302301224","title":"Neuronal development and signaling","description":"The majority of GO terms point to nervous system development (GO:0007399), dendrite morphogenesis (GO:0048813), regulation of axonogenesis, dopamine response, and MAPK/JNK signaling activities, all indicative of neuronal differentiation and neurite outgrowth. An outlier term related to cartilage condensation may reflect broader developmental processes or annotation noise, but the dominant theme is neural development and signaling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903351","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0001502","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0050771","count":2}]},{"hash":"1903994590806110898","title":"Photoreceptor cilium and outer segment organization","description":"Most of the top GO terms describe photoreceptor biology, including retinal rod cell development, photoreceptor outer segment organization, and protein localization to the photoreceptor outer segment, plus non-motile cilium assembly and cilium-related processes. This suggests the cluster comprises proteins involved in the formation and maintenance of the photoreceptor cilium/outer segment, with some metabolism-related terms likely secondary. Therefore the label captures the shared function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006108","count":3},{"id":"GO:1903646","count":2},{"id":"GO:0060296","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0046548","count":2}]},{"hash":"2242338130260422712","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1}]},{"hash":"1472957740595735763","title":"Diverse stress-response and metabolic signaling","description":"The GO terms cover a broad mix: proteolysis, responses to insulin, ethanol, zinc, and cGMP, various metabolic processes, antibacterial peptide production and systemic acquired resistance, plus development in mesonephros. This heterogeneity suggests no single coherent function for the cluster, but rather a collection involved in multiple stress and metabolic signaling pathways.","confidence":"Low","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0032868","count":1},{"id":"GO:0045471","count":1},{"id":"GO:0046900","count":1},{"id":"GO:0006541","count":1}]},{"hash":"579643390560284259","title":"Unknown","description":"The top GO terms are highly diverse, spanning cholesterol and isoprenoid biosynthesis, coenzyme A metabolism, various DNA replication/repair processes, and even obsolete terms. There is no single, coherent biological theme connecting these proteins, and several terms are outdated, suggesting annotation noise rather than a shared function. Thus no reliable label can be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0008299","count":1},{"id":"GO:0015936","count":1}]},{"hash":"108245122808251993","title":"Membrane Transporters of Sugars and Metabolites","description":"The top GO terms cluster around transmembrane transport, including specific sugar transports (arabinose, galactose, fucose), nitrate and vitamin transport, and xenobiotic transport, with a general transport term also present. This suggests a group of proteins focused on moving small molecules across membranes; redox/homeostasis and photosynthesis terms may reflect linked energy/metabolite handling rather than a separate function. Confidence: High","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0015706","count":1}]},{"hash":"1341608615745369883","title":"Ubiquitin-Proteasome Pathways","description":"The cluster\u2019s top GO terms center on ubiquitination events (autoubiquitination, K48/K11/K6 linkages), E3 ligase complexes (SCF, APC/C), and proteasomal degradation, with supporting roles for neddylation and related remodeling. Peroxisomal import and DNA repair terms can involve ubiquitin signaling as part of proteostasis and damage response, reinforcing a common theme of ubiquitin-mediated protein turnover.","confidence":"High","size":8,"edges":24,"triangles":38,"max_degree":7,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051865","count":6},{"id":"GO:0031146","count":6},{"id":"GO:0031145","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0070936","count":6}]},{"hash":"1199978613744744222","title":"Unknown","description":"The set includes diverse, largely unrelated processes (redox homeostasis, cAMP response, DNA recombination, renal water transport, vascular remodeling, hemolysis in other organisms) and several obsolete GO terms, with no single unifying function dominating. Therefore a coherent, specific label cannot be inferred.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0045454","count":2},{"id":"GO:2001153","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0014912","count":2}]},{"hash":"22226883951477570","title":"Endomembrane trafficking and lipid translocation","description":"The eight proteins share GO terms centered on intracellular membrane transport and lipid handling\u2014xenobiotic transmembrane transport, phospholipid translocation, localization to endosomes, and regulation of ER exit\u2014pointing to a shared role in the endomembrane system. Additional terms such as vacuole organization support this trafficking theme. Some annotations (filamentous growth regulation, RNA repair, histone methylation, and cannabinoid/olivetolic acid biosynthesis) appear as outliers in this small cluster, suggesting noise or misannotation. Overall, the most coherent interpretation is a cluster of proteins involved in endomembrane trafficking and lipid movement, with moderate confidence due to the mixed outliers.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0044088","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0045332","count":1}]},{"hash":"1322433054072347719","title":"TLR/NLR Innate Immune Activation","description":"The cluster is dominated by GO terms for innate immune sensing and inflammatory signaling, including innate immune response, defense against virus, TLR1/6 signaling, and NLRP3 inflammasome assembly, as well as cytokine-mediated signaling. Some terms are development or matrix-related, but the core theme is Toll-like receptor and NLRP3\u2013driven innate immune activation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051607","count":4},{"id":"GO:0034150","count":3},{"id":"GO:1904027","count":3},{"id":"GO:0007352","count":3}]},{"hash":"1728059305216369720","title":"Unknown","description":"The top GO terms are scattered across diverse functions (neuronal development like axonogenesis and cerebellar granule cell migration; regulation of GTPase activity; Golgi vesicle fusion; and various obsolete or unrelated terms). There is no clear, single biological process tying these proteins together, and the lack of edges suggests no cohesive interaction pattern. Therefore, the cluster cannot be confidently labeled with a meaningful, specific function.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036083","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0033689","count":2},{"id":"GO:0061399","count":2},{"id":"GO:0048215","count":2}]},{"hash":"522554073658918613","title":"Ribosome Biogenesis and Translation","description":"The cluster is strongly enriched for ribosome-related processes: translation, cytoplasmic translation, ribosome biogenesis and large subunit assembly, along with rRNA processing and maintenance of translational fidelity, indicating a cohesive group of proteins involved in ribosome assembly and protein synthesis, with a possible link to translational quality control under stress.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0046677","count":1}]},{"hash":"2250398865429523804","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms related to ribosome construction and function, including maturation of SSU rRNA, small subunit assembly, ribosome biogenesis, and translation, indicating a cohesive role in ribosome production and protein synthesis. A couple of ancillary terms (oogenesis, apoptosis regulation) may reflect broader cellular roles or annotation overlap.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000462","count":2},{"id":"GO:0030490","count":2},{"id":"GO:0048477","count":1},{"id":"GO:0043066","count":1}]},{"hash":"1687515180402514276","title":"Meiosis-Associated DNA Repair Signaling","description":"This cluster is defined by terms for meiotic DNA double-strand break formation and repair via homologous recombination, plus regulation of reciprocal meiotic recombination and cell-cycle transitions (exit from mitosis, cell division). These points suggest a core theme of meiosis and DNA damage response, with ubiquitination potentially modulating these processes; some stress- and immune-related terms appear as secondary signals but are not central. ","confidence":"Medium","size":7,"edges":15,"triangles":14,"max_degree":6,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0042220","count":4},{"id":"GO:0009408","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0000724","count":3}]},{"hash":"306465562830874135","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by ribosome-related functions, including translation, ribosome biogenesis, and small subunit (SSU) assembly, with maturation of SSU rRNA linking directly to ribosome maturation. A few single-term hits (centrosome separation, cell adhesion, glucocorticoid signaling) are likely incidental. Overall, the proteins appear to participate in ribosome assembly and the translation machinery.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0007100","count":1}]},{"hash":"962331989651956266","title":"Ribosome biogenesis and translational machinery","description":"Dominant GO terms point to ribosome biogenesis, translation, and control of translational fidelity (e.g., tyrosyl-tRNA aminoacylation, initiation/fidelity regulation). Transcription-related terms appear secondary, suggesting the cluster mainly reflects components of the protein synthesis apparatus and its accuracy.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1990145","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0045947","count":1}]},{"hash":"1637470789128866573","title":"Translational Regulation and RNA Processing","description":"The GO terms are dominated by translation-related processes (translation; positive regulation of cytoplasmic translation; positive regulation of translational elongation; maintenance of translational fidelity) and RNA metabolism (spliceosome conformational change; deadenylation-dependent decay), suggesting a functional cluster centered on control of protein synthesis and RNA turnover. Some terms appear peripheral (e.g., BDNF response, muscle contraction, chromatin regulation), but the core theme is translational control and RNA processing.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":1},{"id":"GO:0006412","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0045901","count":1},{"id":"GO:1990416","count":1}]},{"hash":"1013077017858632928","title":"Cellular stress response and protein homeostasis","description":"The top GO terms cluster around autophagosome maturation, stress granule disassembly, ER-to-Golgi transport, and general protein processing, all of which point to cellular mechanisms that handle stress and maintain protein quality. Additional terms related to microtubule severing and protein hexamerization fit into the broader context of trafficking and protein assembly that support these stress-response processes. Some terms seem unrelated or obsolete, but the dominant signal suggests a theme of stress adaptation and protein homeostasis.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0070414","count":1},{"id":"GO:0034214","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0051013","count":1}]},{"hash":"614110531586843644","title":"Ribosome Biogenesis and rRNA Processing","description":"The cluster is dominated by GO terms for maturation of rRNA (LSU and 5.8S) from tricistronic transcripts, ITS1 cleavage, RNA exon ligation, and ribosome assembly, pointing to a shared function in rRNA processing and assembly of ribosomes. A couple of terms related to SOS response and transcription-coupled repair appear, but they do not change the overall theme of ribosome biogenesis. ","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0000464","count":2},{"id":"GO:0043629","count":2}]},{"hash":"1277477563275413913","title":"Spliceosome-regulated mRNA processing","description":"This cluster is defined by strong signals for mRNA splicing and its regulation (positive/negative, alternative), splice site recognition, and mRNA export/modification, suggesting proteins functioning in spliceosome-driven mRNA maturation and associated processing steps.","confidence":"High","size":7,"edges":7,"triangles":2,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0006446","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0006406","count":3}]},{"hash":"450760293539081671","title":"Meiosis and Oocyte Development","description":"The GO terms are dominated by meiosis- and gametogenesis-related processes\u2014homologous chromosome pairing at meiosis, reciprocal meiotic recombination, oocyte maturation, and ovarian follicle development\u2014with supporting DNA repair/recombination context (mitotic recombination-dependent replication fork processing, cellular response to cisplatin). This points to a cluster of proteins functioning in meiotic chromosome handling and reproductive development, rather than a general cellular process.","confidence":"Medium","size":7,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0001556","count":2},{"id":"GO:0007533","count":1},{"id":"GO:1990426","count":1},{"id":"GO:0001541","count":1}]},{"hash":"1589582109841960054","title":"Nucleosome dynamics and chromatin regulation","description":"The top GO terms cluster around nucleosome assembly/disassembly and histone modification (acetylation regulation), pointing to chromatin remodeling as the core shared function. While a few other terms touch on cell-cycle\u2013related processes like microtubule polymerization and budding, the dominant theme is chromatin dynamics and its regulation of transcription.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006337","count":1},{"id":"GO:0071442","count":1}]},{"hash":"135156813764769249","title":"Unknown","description":"The top GO terms are highly diverse (DNA repair and mitosis terms alongside multiple transport and metabolic processes) with several obsolete terms, and there are no interaction edges to tie them into a single function. This suggests no clear, overarching biological role for the cluster, or possible annotation noise, so a single representative function cannot be confidently assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000724","count":1},{"id":"GO:0015821","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0046618","count":1}]},{"hash":"595993332363847364","title":"DNA replication and chromosome maintenance","description":"The Top Terms point to core genome-maintenance processes: DNA replication, recombination during meiosis, sister chromatid segregation, telomere maintenance, and replication fork progression, with items spanning mitotic and meiotic contexts, suggesting a cohesive function in preserving genome integrity.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0000819","count":1},{"id":"GO:0051304","count":1},{"id":"GO:0000712","count":1},{"id":"GO:0045870","count":1}]},{"hash":"224816499890512828","title":"Developmental signaling and morphogenesis","description":"Terms cluster around development and tissue formation: apoptotic processes, cell morphogenesis, regulation of organ proliferation, Wnt and Hippo signaling, keratinocyte differentiation, thyroid and mesoderm development, and adhesion regulation. This combination points to a developmental signaling/morphogenesis theme rather than a single pathway, supporting the label Developmental signaling and morphogenesis as representative of the cluster. ","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0000902","count":6},{"id":"GO:0060044","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0030216","count":6}]},{"hash":"833309948381846297","title":"Vesicle trafficking to lysosome/vacuole and exosome formation","description":"These proteins strongly associate with vesicle-mediated transport toward lysosomes and vacuoles, including protein targeting to lysosome and transport to vacuole via multivesicular body sorting. The presence of exosome assembly and secretion terms further supports a primary role in extracellular vesicle pathways. While some signaling terms appear, they do not define a distinct function from the vesicle trafficking theme. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006622","count":1},{"id":"GO:0031321","count":1},{"id":"GO:0043328","count":1},{"id":"GO:0045743","count":1},{"id":"GO:2000274","count":1}]},{"hash":"1534877412205599644","title":"Membrane dynamics, adhesion, ECM remodeling, and mitochondria","description":"The top GO terms point to membrane- and organelle-related functions: cadherin-mediated cell-cell adhesion, extracellular matrix disassembly, lipid localization and cholesterol biosynthesis regulation, plus regulation of mitochondrial membrane potential and stress-induced mitochondrial fusion. These together suggest a cohesive theme of membrane dynamics coordinating cell adhesion/ECM interactions with mitochondrial remodeling.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1901585","count":5},{"id":"GO:0001302","count":5},{"id":"GO:2000049","count":5},{"id":"GO:0010876","count":5},{"id":"GO:0010918","count":5}]},{"hash":"2188438301776745027","title":"Membrane transporters and vesicle biogenesis","description":"This cluster\u2019s top GO terms cluster around transmembrane transport of diverse substrates (nitrate, arabinose, galactose, fucose, vitamins, xenobiotics) and processes related to membrane assembly/attachment (rhabdomere membrane biogenesis, GPI anchor attachment) as well as neurotransmitter loading into synaptic vesicles. Together, these terms point to a group of membrane-associated proteins involved in substrate transport and membrane/vesicle-related biogenesis and trafficking, rather than a single highly specific pathway.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045313","count":1},{"id":"GO:0016255","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0006004","count":1}]},{"hash":"809690484643613041","title":"Fatty acid and sphingolipid biosynthesis","description":"This cluster\u2019s top terms are strongly centered on lipid metabolism, with fatty acid elongation, very long-chain fatty acid biosynthesis, and sphingolipid biosynthetic processes appearing prominently. Related signaling terms (JNK cascade, canonical NF-kappaB signaling, and Rho signaling) suggest interfaces between lipid metabolism and cellular signaling. A few outlier terms related to viral regulation and cementum mineralization are present but weaker, and the network shows no edges, so the lipid biosynthesis theme is the most representative and coherent explanation. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030497","count":1},{"id":"GO:0071529","count":1},{"id":"GO:0007254","count":1},{"id":"GO:0045070","count":1},{"id":"GO:0030148","count":1}]},{"hash":"472567329401257313","title":"Unknown","description":"The GO terms span diverse contexts\u2014mitochondrial inheritance, lipid biosynthesis (unsaturated fatty acids, ergosterol, sphingolipid-related metabolism), nitrogen/nitrate metabolism, and tissue-specific differentiation (sebaceous glands, CNS myelin). This mix across organisms and systems lacks a single cohesive function or pathway, so a concise, representative label cannot be confidently assigned beyond Unknown.","confidence":"","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0001949","count":2},{"id":"GO:0032286","count":2}]},{"hash":"2096264069947713000","title":"Cell fate and polarity regulation","description":"This cluster features GO terms tied to protein ubiquitination (regulatory mechanism), apoptosis in various lineages, and cell cycle, plus developmental processes such as establishment of epithelial cell polarity, epithelial adhesion, axon/dendrite development, and presynaptic structure maintenance. Together these suggest coordination of cell fate decisions and tissue organization during development, spanning neuronal and epithelial contexts, rather than a single tight pathway.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0007049","count":2},{"id":"GO:2000171","count":2},{"id":"GO:0090162","count":2}]},{"hash":"1783467904420999670","title":"Unknown","description":"The Top Terms cover plant hormone regulation (gibberellin biosynthesis), RNA silencing, ion transport (potassium export and chloride transport), immune cell chemotaxis (dendritic and monocyte), calcium-activated lipid scrambling, and blood coagulation. There is no single cohesive function linking these terms, suggesting a mixed or heterogeneous cluster rather than a single biological theme. ","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010372","count":1},{"id":"GO:0031047","count":1},{"id":"GO:1902304","count":1},{"id":"GO:0002407","count":1},{"id":"GO:0061591","count":1}]},{"hash":"1768063511280113328","title":"Brassinosteroid-regulated plant development","description":"The GO terms reveal brassinosteroid signaling and a range of plant organ and meristem processes (stomatal morphogenesis, floral meristem and organ specification, phloem transport, lateral root morphogenesis), indicating BR-mediated growth and patterning across tissues.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010103","count":1},{"id":"GO:0009729","count":1},{"id":"GO:0009945","count":1},{"id":"GO:0010080","count":1},{"id":"GO:0048833","count":1}]},{"hash":"72588434336924526","title":"DNA Replication and Transcription Core","description":"The top GO terms are dominated by DNA replication (GO:0006260) and DNA-templated transcription (GO:0006351), each with two proteins, plus cytosine metabolic process, suggesting a nuclear DNA maintenance and transcription-focused theme. The other terms are fewer and cover developmental or regulatory processes, which may reflect broader annotation or secondary roles.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0019858","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030878","count":1},{"id":"GO:0001952","count":1}]},{"hash":"775065001931120398","title":"Toll/TLR immune signaling and cytokine production","description":"Most proteins in this cluster map to innate immune pathways driven by Toll-like receptors and cytokine regulation (Toll signaling, TLR9 signaling, macrophage activation, IL-8 production, and dendritic cell cytokine regulation). A few GO terms related to plant meristem development appear, which may reflect annotation noise or broader roles, but the dominant theme is Toll/TLR\u2013mediated immune signaling and cytokine production.","confidence":"High","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":5},{"id":"GO:0008063","count":5},{"id":"GO:1902350","count":5},{"id":"GO:0010080","count":5},{"id":"GO:0050830","count":5}]},{"hash":"2132185319242399940","title":"Acetylation and amino-sugar metabolism","description":"Driven by acetylation-related processes (spermidine/spermine acetylation; N-terminal peptidyl-glutamic acid acetylation) and amino-sugar metabolism (glucosamine/N-acetylglucosamine), with a melatonin biosynthesis term also present. These terms point to a shared theme of acetyltransferase-associated modifications feeding into sugar metabolism and melatonin production, justifying a label around acetylation-linked metabolism.","confidence":"Medium","size":7,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000746","count":1},{"id":"GO:0006627","count":1},{"id":"GO:0032918","count":1},{"id":"GO:0060358","count":1},{"id":"GO:0032919","count":1}]},{"hash":"1013461620425136002","title":"Central Metabolism and Stress Response","description":"The top GO terms cluster around core central carbon metabolism (TCA cycle, glyoxylate cycle, malate/oxaloacetate metabolism) and nutrient sensing (glucose), with additional signals of cellular stress and remodeling (hypoxia, hydrogen peroxide, estrogen response, and apoptotic regulation). This suggests a cohesive theme of metabolic regulation in response to stress and energy status, rather than a single specific pathway, justifying a label centered on metabolism with stress adaptation.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0001666","count":2},{"id":"GO:0006108","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0043627","count":2}]},{"hash":"2244054295008091070","title":"Unknown","description":"No GO terms are provided for this cluster (Top Terms list is empty), so there is no evident common function or theme to base a label on. The network is sparse with 7 proteins and 6 edges but no enrichment signals to guide a specific name.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"747004034955555273","title":"Hepatic Retinoid, Sugar, and Bile Acid Metabolism","description":"The top GO terms cluster around retinoid (retinol/retinal) metabolism, fructose biosynthesis, and bile acid catabolism, with supporting evidence for ethanol oxidation\u2014all classic liver metabolic processes. Calcium ion signaling and JAK-STAT\u2013related receptor signaling suggest hepatocyte signaling interactions. A single renal development term seems less connected, but the core theme is liver-centered metabolism.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":6},{"id":"GO:0046370","count":5},{"id":"GO:0042574","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006069","count":3}]},{"hash":"1072923927099948896","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019448","count":3},{"id":"GO:0070903","count":3},{"id":"GO:0051384","count":3},{"id":"GO:0009436","count":3},{"id":"GO:0042866","count":3}]},{"hash":"105195155264521376","title":"DNA Damage Response and Cell Cycle Signaling","description":"The cluster centers on DNA damage repair (homologous recombination, meiotic DSB formation, recombination regulation), mitotic control (exit from mitosis, spindle elongation), and stress-related pathways (ubiquitination, ER stress\u2013related apoptosis), suggesting a core theme of DNA damage response and cell-cycle regulation; immune signaling terms appear ancillary to this core function.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0002223","count":7},{"id":"GO:0000724","count":7},{"id":"GO:0042138","count":7},{"id":"GO:0010845","count":7},{"id":"GO:0051865","count":7}]},{"hash":"683084259888473990","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0006168","count":1},{"id":"GO:0044205","count":1},{"id":"GO:0006223","count":1},{"id":"GO:0032265","count":1}]},{"hash":"287795213259476920","title":"TLR/NLRP3 Innate Immune Signaling","description":"The top GO terms are dominated by innate immune sensing and inflammatory pathways: TLR1/6 signaling, detection of bacterial components (LPS, lipoprotein peptides), cytokine-mediated signaling, and positive regulation of the NLRP3 inflammasome, all indicating pattern-recognition and inflammatory signal transduction. A few terms relate to development or other pathways (Wnt, axis specification, collagen fibril regulation) and may reflect broader multifunctionality or annotation noise, but they do not override the clear immune-signaling theme. Overall, the cluster appears to center on TLR- and inflammasome-driven innate immune signaling.","confidence":"High","size":7,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034150","count":1},{"id":"GO:1904027","count":1},{"id":"GO:0007352","count":1},{"id":"GO:1900227","count":1},{"id":"GO:1904887","count":1}]},{"hash":"2112722912025756859","title":"Cardiac electrical activity and heart development","description":"The top GO terms point to cardiac rhythm and development, including AV node\u2013related depolarization, SA node regulation, and outflow tract morphogenesis, as well as signaling (cAMP) that modulates heart activity. While there are a few unrelated processes (pain behavior, macrophage signaling, cortisol biosynthesis), the dominant pattern connects to heart rhythm generation and cardiac morphogenesis, supporting a label focused on cardiac conduction and development.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034767","count":1},{"id":"GO:0086045","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0071320","count":1}]},{"hash":"2056215586875049241","title":"Oxygen-regulated prolyl hydroxylation","description":"These GO terms point to regulation of post-translational modifications and intracellular oxygen balance, with a specific emphasis on peptidyl-proline hydroxylation. This suggests proteins involved in oxygen-dependent PTMs, potentially prolyl hydroxylases or regulators of hydroxylation in response to redox state. However, the annotations are sparse, and one term is obsolete, so the connection is plausible but not strong.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901874","count":1},{"id":"GO:0032364","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1181101922083233931","title":"Protein and polyamine acetylation","description":"The top terms are strongly centered on acetylation: spermidine and spermine acetylation, various forms of N-terminal and peptidyl acetylation, and even propionylation. Additional terms for N-acetylglucosamine/glucosamine metabolism and melatonin biosynthesis fit the broader theme of acetyltransferase activity and acetyl-CoA\u2013dependent modifications. This suggests a cohesive cluster around acetylation-related processes, with a minor annotation noise (obsolete regulation term) present.","confidence":"High","size":7,"edges":18,"triangles":22,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032918","count":5},{"id":"GO:0060358","count":5},{"id":"GO:0032919","count":5},{"id":"GO:0046208","count":5},{"id":"GO:0006041","count":5}]},{"hash":"1034371286483341347","title":"Sorocarp development regulation","description":"This cluster's top terms point to regulation of sorocarp development and negative regulation of asexual reproduction, implying proteins involved in controlling slime mold development during aggregation and fruiting.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903665","count":1},{"id":"GO:0031157","count":1}]},{"hash":"2126288248097766124","title":"Unknown","description":"There is no shared GO information or interaction data to define a common function for these 7 proteins (no edges, no triangles, no top terms). Without a unifying biological process or component, the cluster cannot be confidently labeled beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"751603087580660639","title":"Cell Division and Translation","description":"This cluster centers on cell cycle and division (cell cycle, cell division, cell septum assembly) with accompanying protein synthesis and targeting processes (cytoplasmic translation, SRP-dependent cotranslational targeting to membrane), suggesting coordination of growth and division through translation machinery. Peripheral terms like iron import and conjugation are less central, but do not override the core theme.","confidence":"Medium","size":6,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0000055","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0006614","count":1}]},{"hash":"1968604559141267020","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000453","count":1},{"id":"GO:0039654","count":1},{"id":"GO:0039694","count":1},{"id":"GO:0039520","count":1},{"id":"GO:0097309","count":1}]},{"hash":"189240927810127782","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0071560","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0050731","count":2}]},{"hash":"805133468498910511","title":"Proteostasis and translation quality control","description":"This cluster is dominated by post-translational modification and quality-control processes: protein ubiquitination, ubiquitin-dependent ERAD, deglycosylation, and factors influencing translational fidelity and tRNA modification. Although nucleotide-excision repair appears, its presence is minimal compared to the strong signals for proteostasis and protein quality control, suggesting the proteins function together in maintaining protein integrity and accurate translation rather than a single DNA repair pathway or other unrelated processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0002949","count":1}]},{"hash":"299074458441094984","title":"Anti-inflammatory and oxidative stress regulation","description":"These proteins cluster around detoxifying cellular oxidants and downregulating inflammatory signaling, including negative regulation of extrinsic apoptotic signaling, TNF and IL-1\u03b2 production, and MCP-1, along with a glucocorticoid response. They also touch on nitric oxide biology and minor metabolic processes, suggesting a cohesive theme of anti-inflammatory regulation coupled with oxidative stress management.","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:2001237","count":2},{"id":"GO:0071385","count":2},{"id":"GO:0071638","count":2},{"id":"GO:0035732","count":2}]},{"hash":"1075885803265948680","title":"Developmental growth and cell division","description":"The top GO terms cluster around developmental processes (embryonic organ development, spinal cord development, seminiferous tubule development, multicellular organism growth) and core cell-cycle activities (DNA replication, mitotic sister chromatid cohesion, cell population proliferation), with a secondary note of stress response (response to heat). This suggests a cohesive theme of growth/proliferation during development, with some incidental heat-related signaling.","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:0009408","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0048568","count":2}]},{"hash":"7585367714367610","title":"Neuronal Synaptic Signaling and Development","description":"The top GO terms cluster around neuronal processes: brain development, synaptic vesicle maturation, neurotransmitter secretion, and glutamate receptor signaling, indicating a focus on synaptic transmission and neuronal maturation. Some terms are unrelated outliers, but the dominant theme supports a neuronal synaptic function label.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0043087","count":1},{"id":"GO:0016188","count":1},{"id":"GO:0031914","count":1},{"id":"GO:0007269","count":1}]},{"hash":"2017994706957321387","title":"TLR Signaling and Innate Immune Activation","description":"This cluster is enriched for multiple Toll-like receptor signaling terms (TLR2/3/4/9/10), LPS signaling, and macrophage/dendritic cell activation, plus defense against Gram-negative bacteria and dsRNA response, indicating a coherent TLR-mediated innate immune response.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002730","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0034142","count":2},{"id":"GO:0031663","count":2}]},{"hash":"1688698007898406505","title":"Calcium Handling in Cardiac Function","description":"The terms point to calcium ion regulation and signaling (intracellular Ca homeostasis, ER Ca concentration, Ca release from stores, Ca-dependent exocytosis) and heart function regulation (negative regulation of heart contraction/adrenergic signaling). Additional entries like otolith mineralization and ion homeostasis reinforce a calcium-centered theme linked to cardiac physiology. Confidence: High","confidence":"","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":2},{"id":"GO:1901205","count":1},{"id":"GO:0032470","count":1},{"id":"GO:0045299","count":1},{"id":"GO:0061454","count":1}]},{"hash":"45205766821199599","title":"Regulatory signaling and cell polarity","description":"Proteins here are linked to a variety of regulatory processes across signaling and cellular organization, including positive/negative regulation of diverse pathways (meiosis, cytokine production, endothelial remodeling, epithelial polarity, foam cell differentiation) and intracellular signal transduction, indicating a broad regulatory role rather than a single cohesive function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010845","count":1},{"id":"GO:1900827","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0090162","count":1}]},{"hash":"1688403661209529024","title":"Fungal meiosis and ascospore formation","description":"Top GO terms indicate fungal development, meiosis, and spore formation (ascospore wall assembly, meiotic chromosome movement). Additional terms about actin patches and regulation of endocytosis reflect cytoskeleton dynamics and membrane remodeling that support growth and sporulation. Some terms (e.g., retina homeostasis, platelet aggregation) appear as noise, but the core signal is fungal reproductive development.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":6},{"id":"GO:0043983","count":6},{"id":"GO:0051592","count":6},{"id":"GO:0051666","count":6},{"id":"GO:0001895","count":6}]},{"hash":"1915238456933474946","title":"Microbial secondary metabolite biosynthesis and lipid metabolism","description":"The top GO terms point to multiple biosynthetic pathways typical of microbes, notably antibiotic biosynthesis, siderophore biosynthesis, and menaquinone biosynthesis, along with various fatty acid and lipid-related metabolic processes. This suggests a cluster focused on microbial secondary metabolism and lipid metabolism, though some plant-related terms and transcription regulation appear as potential noise. Confidence: Medium","confidence":"","size":6,"edges":9,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0008206","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0090410","count":1}]},{"hash":"510241549543731975","title":"Epigenetic transcriptional regulation","description":"The cluster\u2019s notable GO terms center on transcription control (negative regulation and termination of RNA Pol II) and RNA processing/export, coupled with chromatin-related marks (DNA methylation in CHH contexts and H3K9 dimethylation). This points to a cohesive theme of transcriptional regulation modulated by epigenetic mechanisms, with a minority of terms touching on developmental processes like olfactory/nose development and vernalization. Despite some outdated terms, the shared thread is regulation of gene expression at the transcriptional/chromatin level, sometimes linked to development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0060123","count":1},{"id":"GO:0021553","count":1},{"id":"GO:0010426","count":1},{"id":"GO:0036123","count":1}]},{"hash":"1426414919832793744","title":"Cyclic nucleotide signaling via GPCRs","description":"The terms cluster around cyclic nucleotide (cAMP and cGMP) production, GPCR signaling (adenosine receptor), guanylyl cyclase pathways, and related phototransduction/hypoxia signaling, suggesting a cohesive role in cyclic nucleotide\u2013mediated signaling regulated by GPCR activity.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":2},{"id":"GO:1904322","count":1},{"id":"GO:0052565","count":1},{"id":"GO:0007168","count":1},{"id":"GO:0030828","count":1}]},{"hash":"1299399901421029279","title":"Toll/TLR Innate Immune Signaling","description":"The top GO terms point to Toll signaling, TLR9 signaling, macrophage activation, and regulation of cytokine production, including defense against Gram-positive bacteria, which together indicate a cluster of proteins involved in innate immune signaling and leukocyte activation. A few terms related to development and plant meristem regulation appear, but the dominant pattern centers on Toll/TLR pathways and immune responses.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007352","count":3},{"id":"GO:0008063","count":3},{"id":"GO:1902350","count":3},{"id":"GO:0010080","count":3},{"id":"GO:0050830","count":3}]},{"hash":"2063222227993380484","title":"Nucleobase Transport Across Membranes","description":"Most GO terms point to import/transport of purine and pyrimidine bases (guanine, hypoxanthine, adenine, uracil, xanthine, urate) across the plasma membrane, with additional general organic acid transport. A couple of terms (ER protein folding, redox homeostasis) are present but do not define the core function; thus the main theme is nucleobase transport across membranes.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0098710","count":1},{"id":"GO:0035344","count":1},{"id":"GO:0070904","count":1}]},{"hash":"576601459101902404","title":"Mitochondrial protein import and membrane regulation","description":"Top GO terms indicate mitochondrial focus, with protein import into the mitochondrial matrix and regulation of mitochondrial membrane permeability. Other terms touch lipids and cell cycle regulation, but the mitochondrial-related terms predominate, suggesting a mitochondrial import/membrane-regulatory cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000134","count":1},{"id":"GO:1903740","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0046902","count":1},{"id":"GO:0010867","count":1}]},{"hash":"2110866280641632422","title":"Cell wall metabolism and sporulation","description":"This cluster centers on processes related to cell wall components (peptidoglycan and chitin) and their synthesis and breakdown, along with cell wall organization and sporulation. Some terms like Golgi ribbon formation and S-nitrosylation regulation appear but are less directly connected to the main theme, which is cell wall remodeling and spore-related processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009253","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0009252","count":1},{"id":"GO:0016998","count":1}]},{"hash":"1775414642648570576","title":"Unknown","description":"The listed GO terms are highly heterogeneous: synapse organization and neuron-related regulation appear, along with general signaling and protein stabilization terms, plus an outlier about Gram-negative outer membrane assembly and several obsolete terms. With no clear, unified function across the proteins, there isn\u2019t a robust, representative label. Therefore the cluster is best described as Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":1},{"id":"GO:0051085","count":1},{"id":"GO:0050808","count":1},{"id":"GO:0030512","count":1},{"id":"GO:0043165","count":1}]},{"hash":"919329803097942031","title":"Mitochondrial respiration and proton transport","description":"This cluster centers on mitochondrial energy production, with GO terms for mitochondrial electron transport (ubiquinol to cytochrome c), proton transmembrane transport, and aerobic respiration, pointing to oxidative phosphorylation. A defense response term appears once and does not define the group.","confidence":"High","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006952","count":1},{"id":"GO:0008284","count":1},{"id":"GO:0006122","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0009060","count":1}]},{"hash":"1385937114005057174","title":"Ubiquitin-like modifications and autophagy","description":"The proteins cluster around ubiquitin-like conjugation pathways (SUMO, NEDD8, UFM1) and autophagy processes, including macroautophagy and nucleophagy/piecemeal microautophagy of the nucleus, with lipidation and cell-cycle regulation showing as supporting signals. This coherent theme suggests a module linking post-translational modification by ubiquitin-like proteins to selective degradation and nuclear turnover.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0045116","count":2},{"id":"GO:0006501","count":2},{"id":"GO:0034727","count":2},{"id":"GO:0051726","count":2}]},{"hash":"995671735880919840","title":"Cardiac conduction and heart development","description":"The cluster\u2019s GO terms cluster around heart-specific processes: membrane depolarization during AV node action potentials, regulation of SA node action potentials, and outflow tract morphogenesis, plus associated signaling like cAMP and cardiovascular development. While there are a few unrelated terms (cortisol biosynthesis, pain behavior), the dominant theme is cardiac conduction and heart development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034767","count":1},{"id":"GO:0086045","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0071320","count":1}]},{"hash":"1889016796053480058","title":"Unknown","description":"The GO terms cover reproductive regulation (negative regulation of male germ cell proliferation, female gonad development), lipid/sterol metabolism (prostaglandin biosynthetic process, unsaturated fatty acid biosynthesis, regulation of ergosterol biosynthetic process), detoxification, mitochondrial inheritance, nitrate assimilation, sebaceous gland differentiation, and CNS myelin maintenance. This broad, cross-species mix provides no clear, shared function linking all proteins, so the cluster is best labeled Unknown.","confidence":"","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000255","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0000001","count":2}]},{"hash":"976189433678670340","title":"Innate immune signaling and inflammatory responses","description":"The GO terms center on NOD2 signaling and regulation of NF-kappaB activity, with associated inflammatory mediator production (MIP-1 alpha, IL-12) and stress responses (glucose starvation), indicating a cohesive theme of innate immune signaling and inflammatory regulation, with some ancillary stress response signals.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0042149","count":2},{"id":"GO:2000340","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1555848838160231630","title":"Retinoid Metabolism and Development","description":"The top GO terms converge on retinoid biology\u2014retinol and retinal metabolism and 9-cis-retinoic acid biosynthesis\u2014indicating a retinoid metabolism theme. The inclusion of inner ear morphogenesis and pancreas development supports a developmental role for retinoic acid signaling. Some other terms appear peripheral, but the dominant signal is retinoid metabolism connected to development.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":2},{"id":"GO:0042574","count":2},{"id":"GO:0001568","count":1},{"id":"GO:0042904","count":1},{"id":"GO:0042472","count":1}]},{"hash":"2260822679708555910","title":"Vesicle trafficking and exosome pathways","description":"The terms cluster around vesicle transport to lysosomes/vacuoles (protein targeting to lysosome, multivesicular body sorting, vesicle-mediated transport) and extracellular vesicle dynamics (exosome assembly and exosomal secretion), suggesting a cohesive role in secretory/lysosomal vesicle processes. Some signaling terms appear tangentially, but the dominant theme is vesicle trafficking and exosome regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006622","count":1},{"id":"GO:0031321","count":1},{"id":"GO:0043328","count":1},{"id":"GO:0045743","count":1},{"id":"GO:2000274","count":1}]},{"hash":"728108748645760431","title":"Unknown","description":"The top GO terms span a broad and disparate set of processes (neurotransmitter secretion and synaptic regulation; ribophagy; egg activation; protein autoprocessing; intracellular transport; granuloma formation; myoblast fusion), with no clear, single biological theme tying the cluster together. Therefore a cohesive, specific label is not supported beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":1},{"id":"GO:0016188","count":1},{"id":"GO:0031914","count":1},{"id":"GO:0007269","count":1},{"id":"GO:0034517","count":1}]},{"hash":"646839690168801869","title":"Purine nucleotide biosynthesis and metabolism","description":"The cluster\u2019s top GO terms are dominated by purine-related processes: AMP biosynthesis, hypoxanthine and urate biosynthesis, nucleoside metabolism, and PRPP (5-phosphoribose 1-diphosphate) biosynthesis, indicating a shared role in purine nucleotide production and turnover; a few development terms likely reflect broad annotations rather than core function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006167","count":1},{"id":"GO:0060348","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0043086","count":1},{"id":"GO:0031505","count":1}]},{"hash":"2231060825590426953","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0035281","count":1}]},{"hash":"316632635059432207","title":"Cajal body\u2013associated RNA processing and chaperone activity","description":"The top GO terms center on localization of scaRNA and telomerase RNA to Cajal bodies and regulation of protein localization to Cajal bodies, indicating a cluster tied to Cajal body\u2013specific RNA processing and RNP assembly. Supporting this, chaperone-related terms (protein refolding, chaperone-mediated complex assembly) imply proteostasis during assembly of RNA\u2013protein complexes in Cajal bodies, with detection of misfolded proteins reflecting quality control. An isolated IL-6 production term is less central. Overall, these proteins likely participate in Cajal body\u2013related RNA biology and associated chaperone machinery.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":5},{"id":"GO:0051085","count":5},{"id":"GO:1904871","count":5},{"id":"GO:0002236","count":5},{"id":"GO:2000778","count":5}]},{"hash":"1195272924479099557","title":"Ribosome biogenesis and translation","description":"This cluster centers on translation and ribosome assembly/maturation, with GO terms for translation, ribosome biogenesis, SSU/LSU rRNA maturation, and small subunit assembly, plus RNA surveillance/decay linked to translation quality control. A single developmental term (hemopoiesis) is likely incidental. Overall theme is ribosome production and protein synthesis.","confidence":"High","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006407","count":1},{"id":"GO:0000028","count":1}]},{"hash":"1440007389892413870","title":"Ribosome biogenesis and translation fidelity","description":"This cluster is dominated by terms tied to protein synthesis and ribosome assembly, including translation (GO:0006412) and ribosome biogenesis (GO:0042254), plus aspects of translational fidelity (GO:1990145, GO:0045903). The antibiotic response term can reflect translation-associated stress, supporting a theme around ribosome function and accurate protein production.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:1990145","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0045903","count":1}]},{"hash":"2302645358430468999","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0034101","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0006412","count":1}]},{"hash":"2037454292325147655","title":"Toll/TLR-Mediated Innate Immune Signaling","description":"The top GO terms are dominated by innate immune processes: Toll signaling, TLR9 signaling, macrophage activation, and regulation of proinflammatory cytokines such as IL-8; these point to an innate immune response cluster. A few terms related to plant development (zygotic axis, floral meristem regulation, meristem structure) appear as outliers and likely represent annotation noise rather than a shared function. Overall, the data support a core theme of Toll/TLR-driven innate immune signaling and cytokine production.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007352","count":1},{"id":"GO:0008063","count":1},{"id":"GO:1902350","count":1},{"id":"GO:0010080","count":1},{"id":"GO:0050830","count":1}]},{"hash":"1996301053736738582","title":"Translation and tRNA charging","description":"The top terms are dominated by translation and tRNA aminoacylation (prolyl-, glutamyl-, glutaminyl-tRNA charging) and the translation process itself, indicating a cluster of proteins involved in the protein synthesis machinery and tRNA modification/charging. A few terms about SMAD complex assembly and cardiac morphogenesis appear as isolated annotations, suggesting these are noise or misannotations rather than core functions. Overall, the central theme is translation-related.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006433","count":1},{"id":"GO:0006424","count":1},{"id":"GO:0006425","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0006400","count":1}]},{"hash":"544850928996759936","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0006376","count":1},{"id":"GO:0001825","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0071031","count":1}]},{"hash":"1497425212730299581","title":"Transcription and RNA Processing","description":"Top GO terms emphasize transcription (DNA-templated transcription, transcription antitermination) and RNA metabolism (pre-miRNA processing, miRNA catabolic process, CRD-mediated mRNA stabilization). Although there are mentions of DNA replication and kidney development, the shared theme across the cluster appears to be regulation of gene expression at both transcriptional and post-transcriptional levels, with RNA processing and stability as common threads.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0060567","count":1},{"id":"GO:0070934","count":1},{"id":"GO:1901724","count":1},{"id":"GO:0006351","count":1}]},{"hash":"567715147714857169","title":"Purine nucleotide metabolism and salvage","description":"The proteins show strong enrichment for nucleotide biosynthesis and salvage processes (ADP and CDP biosynthesis, AMP salvage, nucleotide phosphorylation) and purine ribonucleotide interconversion, indicating a shared role in generating and modifying nucleotides. The brain and liver development terms appear less central to the core function and may reflect broader annotation overlap; overall the dominant signal is nucleotide metabolism, which also ties indirectly to DNA replication initiation.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":4},{"id":"GO:0006172","count":4},{"id":"GO:0046041","count":4},{"id":"GO:0046705","count":4},{"id":"GO:0046939","count":4}]},{"hash":"517863478655063193","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000480","count":3}]},{"hash":"163913031283645867","title":"DNA damage response and chromatin maintenance","description":"These proteins cluster around DNA repair and genome maintenance: homologous recombination/repair (e.g., synthesis-dependent strand annealing), DNA damage tolerance, and meiotic recombination, together with chromatin-related processes (nucleosome positioning, histone modification regulation, heterochromatin maintenance). The combination suggests a functional module focused on preserving genome integrity through repair and chromatin organization; some terms are obsolete but the core theme remains DNA damage response and chromatin regulation.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045003","count":3},{"id":"GO:0006363","count":3},{"id":"GO:0006268","count":3},{"id":"GO:0007131","count":2},{"id":"GO:0016584","count":2}]},{"hash":"1631430915647022959","title":"DNA Repair and Stress Response","description":"Top terms include several DNA repair processes (NER gap filling, BER gap filling, and DSB repair via NHEJ) and stress responses (response to gamma radiation, response to ethanol). Protein deubiquitination is known to regulate repair signaling, reinforcing a DNA damage response theme. Although a few development-related terms are present (lymph node, spleen, salivary gland morphogenesis), the strongest shared function suggested by the terms is DNA repair and cellular stress signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0048535","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0006297","count":2}]},{"hash":"803414650460339751","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for ribosome biogenesis (small and large subunits), ribosomal subunit export from the nucleus, and cytoplasmic translation, pointing to a core role in assembling and deploying ribosomes for protein synthesis. Additional terms like tRNA modification and cell cycle relate to growth and proliferation, while mitochondria distribution and cellular fusion conjugation reflect broader cellular organization during growth. Overall, the theme is ribosome assembly and protein production.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048312","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0000747","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0090529","count":2}]},{"hash":"372105861716952939","title":"Unknown","description":"The top GO terms are scattered across ion transport, mitochondrial transport, autophagy (ribophagy and autophagosome maturation), and cell cycle processes (mitosis exit and chromatid separation), with an additional viral replication term, and there are no edges connecting the proteins, so there is no clear, cohesive function tying the cluster together.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903830","count":1},{"id":"GO:0006824","count":1},{"id":"GO:0045016","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0097352","count":1}]},{"hash":"1169195266309434171","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA metabolism and ribosome biogenesis\u2014mRNA export from the nucleus, Box C/D snoRNP assembly, and chaperone-mediated protein complex assembly\u2014pointing to RNA processing and ribosome assembly as the core function. Other terms reflect stress-related proteostasis (autophagosome maturation, oxidation-dependent protein catabolic process), which can accompany ribosome biogenesis, while viral genome replication and DNA recombination seem less representative noise.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0001319","count":1},{"id":"GO:0040008","count":1}]},{"hash":"433053774724740428","title":"Unknown","description":"The terms span a mix of distinct processes (platelet aggregation, retina homeostasis, calcium signaling, actin localization, endocytosis, fungal spore wall assembly, aging, growth, and meiotic chromosome movement) across different organisms, with no clear shared function or pathway tying them together, so a coherent, specific label isn\u2019t reliably supported.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":3},{"id":"GO:0043983","count":3},{"id":"GO:0051592","count":3},{"id":"GO:0051666","count":3},{"id":"GO:0001895","count":3}]},{"hash":"2260162091436594982","title":"Bacterial cell wall biosynthesis and division","description":"The dominant GO terms cluster around bacterial envelope construction and cell cycle: peptidoglycan biosynthesis, capsule polysaccharide biosynthesis, and cell wall organization, together with cell division and cell cycle terms. A few terms (cytokinin catabolic process, arabinan biosynthesis, various metabolic processes, antibiotic response) appear less concordant, but the strongest signal is coupling of cell-wall biosynthesis with cell division in bacteria.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0009823","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0035884","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1096005064602930318","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0046825","count":3},{"id":"GO:0070843","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0031204","count":3}]},{"hash":"1951667863036761912","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:1903883","count":1},{"id":"GO:0001519","count":1},{"id":"GO:2000637","count":1},{"id":"GO:0018032","count":1}]},{"hash":"871859785103409721","title":"Ubiquitin-regulated DNA repair and cell cycle","description":"The top GO terms cluster around ubiquitin-related processes (ubiquitin-dependent ERAD, protein autoubiquitination) and genome maintenance events (DNA double-strand break repair by homologous recombination, meiotic DSB formation, reciprocal recombination) plus cell cycle progression (exit from mitosis, spindle elongation). While some terms touch on immune signaling, the strongest common thread is ubiquitin-mediated regulation of DNA repair and meiotic/mitotic progression. This suggests the proteins in this cluster function in ubiquitin-dependent control of genome maintenance and cell cycle dynamics.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0002223","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0042138","count":2},{"id":"GO:0010845","count":2}]},{"hash":"379966958405404058","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0046825","count":4},{"id":"GO:0070843","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0031204","count":4}]},{"hash":"91401309838174594","title":"Unknown","description":"No common GO terms visible for this cluster; the Top Terms section is empty and there are only two edges among five proteins, with no triangles, offering no clear shared function. Without functional annotations, I cannot reliably assign a specific label.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"664643404478307135","title":"Retinoid metabolism and developmental morphogenesis","description":"Top terms include retinol metabolic process and 9-cis-retinoic acid biosynthetic process, along with developmental events like inner ear morphogenesis and blood vessel development, suggesting a core link between retinoid signaling and morphogenesis. The presence of diverse metabolic terms (proline, acetate, GABA/putrescine catabolism, glucosylceramide metabolism) indicates accompanying metabolic activity in this cluster. Therefore, the label emphasizes retinoid-related metabolism in a developmental context, with some broader metabolism represented.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":4},{"id":"GO:0009447","count":4},{"id":"GO:0009450","count":4},{"id":"GO:0001568","count":3},{"id":"GO:0042904","count":3}]},{"hash":"171443509023921829","title":"Embryonic neural and mesodermal development","description":"These GO terms cover development across neural (cortex layer formation, neuron maturation regulation, dopamine response) and mesoderm-derived tissues (myoblast fusion, mesodermal cell fate regulation), plus endocrine/adipose differentiation (thyroid gland, brown fat). The unifying theme is broad embryonic development in neural and mesodermal lineages, supported by signaling-related terms like JNK regulation. Since no single, specific function ties all terms together, a general developmental label is most representative.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030878","count":1},{"id":"GO:0001952","count":1},{"id":"GO:0048378","count":1},{"id":"GO:0048511","count":1},{"id":"GO:1903351","count":1}]},{"hash":"210179965631403469","title":"Transmembrane nutrient and ion transport","description":"The dominant GO terms point to transport across membranes for diverse substrates (nitrate/nitrite, D-xylose, lactose biosynthesis, organic cations) and ion movement (sodium, potassium). This suggests a cluster of membrane transporters or transport-related proteins; a couple of terms are less directly connected (quorum sensing, intestinal structure maintenance) but do not override the main signal of transmembrane transport.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":1},{"id":"GO:0071332","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0052106","count":1},{"id":"GO:0060731","count":1}]},{"hash":"2059374737980021845","title":"Ubiquitin-Dependent Proteolysis and JNK Regulation","description":"Based on the top GO terms, the cluster centers on ubiquitin-mediated protein turnover and regulation of signaling pathways, especially regulation of the JNK cascade, with protein autoubiquitination and ubiquitin-dependent proteolysis as core processes. The inclusion of negative regulation of TGF-beta receptor signaling supports a broader pattern of ubiquitin-regulated signaling control. A few terms (cerebellar granular layer organization, dosage compensation) appear less connected and likely reflect annotation noise or broader roles, but the dominant theme is ubiquitin-dependent degradation linked to signaling regulation.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0030512","count":2},{"id":"GO:0046621","count":1}]},{"hash":"1579951602216750747","title":"Unknown","description":"There are no GO terms listed to connect the proteins; lacking functional terms makes it impossible to infer a common theme. With only 3 edges and no triangles, the cluster lacks clear evidence of a shared function, so the label is Unknown.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"2217711384032880802","title":"Bacterial Respiration and Flagellar Assembly","description":"The top GO terms point to core bacterial energy metabolism (TCA cycle, respiratory chain, aerobic respiration) and one term highlights bacterial-type flagellum assembly, suggesting a cluster of proteins involved in both energy production and motility in bacteria.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":1},{"id":"GO:0044780","count":1},{"id":"GO:0022904","count":1},{"id":"GO:0009060","count":1}]},{"hash":"2143707310345429298","title":"Peroxisome Dynamics and Oxidative Stress","description":"Most GO terms point to peroxisome biogenesis and maintenance (peroxisome organization, fission, size regulation) and redox control (negative regulation of H2O2 biosynthesis), with related apoptotic signaling via cytochrome c; together these suggest a cluster of peroxisome-associated proteins involved in lipid metabolism and oxidative balance.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007031","count":1},{"id":"GO:0044375","count":1},{"id":"GO:0016559","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0006915","count":1}]},{"hash":"61171997577371452","title":"Amino acid biosynthesis and NAD/NADP metabolism","description":"The terms indicate amino acid biosynthetic processes (homoserine/threonine and possibly isoleucine) and NAD+/NADP+ related metabolism, suggesting a metabolic module focused on amino acid production and redox cofactor turnover. Some terms are obsolete or unrelated (retinoic acid metabolism, respiratory system process), which lowers cohesion, so the label is best viewed as a general metabolic cluster with medium confidence.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006742","count":1},{"id":"GO:0009086","count":1},{"id":"GO:0009435","count":1},{"id":"GO:0009090","count":1}]},{"hash":"256858110188630308","title":"Hormone-Linked Metabolic and Transcription Regulation","description":"The cluster shows core metabolism signals (acetyl-CoA, succinyl-CoA, TCA cycle) together with transcription-related terms (DNA-templated transcription and its negative regulation) and hormone signaling indicators (steroid hormone receptor complex assembly, prostate development, male differentiation), suggesting a link between metabolism, transcription control, and hormonal pathways. Immune-related terms are present but less central.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006085","count":1},{"id":"GO:0006104","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0051775","count":1}]},{"hash":"839386303434843431","title":"Bacterial Secretion and Antimicrobial Transport","description":"This cluster is driven by GO terms tied to transport and secretion in bacteria, including protein secretion by the Type I secretion system, bacteriocin transport, teichoic acid transport, and xenobiotic/antibiotic-related export. These points together suggest a cohesive function centered on secretion and export of antimicrobial compounds and related cell-envelope processes in Gram-positive bacteria. Some terms (like ceramide translocation or cholesterol regulation) are less directly connected but do not override the dominant transport/secretion theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0015821","count":2},{"id":"GO:0046618","count":2},{"id":"GO:0043213","count":2},{"id":"GO:0015777","count":2}]},{"hash":"714838010935887395","title":"Unknown","description":"The top terms include cardiac ventricle development and regulation of cardiac conduction, but there are also diverse terms (intestinal epithelial development, xenobiotic response, glycolysis, fructose metabolism) with no single cohesive function tying all proteins together. Therefore there is no clear theme to label a specific function.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003231","count":2},{"id":"GO:1903779","count":2},{"id":"GO:0060576","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0010666","count":1}]},{"hash":"590367135988421897","title":"Unknown","description":"Top terms are highly heterogeneous, including neuron development, mesodermal fate specification, myeloid/mast cell differentiation, actin-binding regulation, pH response, and reproductive development, each represented by a single protein and with no shared pathway or interactions. There is no cohesive functional theme tying the proteins together, so a specific, intuitive cluster label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":1},{"id":"GO:0043366","count":1},{"id":"GO:0048666","count":1},{"id":"GO:0048378","count":1},{"id":"GO:1904531","count":1}]},{"hash":"1907437614004585567","title":"Ubiquitin-Dependent Signaling and DNA Repair","description":"This cluster shows strong hints of ubiquitin-related regulation (K63-linked deubiquitination, COP9 signalosome assembly) and cell-cycle/DNA repair functions, suggesting a shared role in ubiquitin-mediated signaling and genome maintenance; other terms appear more peripheral.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070537","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0010387","count":1},{"id":"GO:0070536","count":1}]},{"hash":"814097874097511686","title":"Wnt/Hippo-driven developmental growth signaling","description":"This cluster centers on developmental signaling and organ/tissue growth control, highlighted by terms related to Wnt and Hippo pathways (negative regulation of canonical Wnt signaling; Hippo signaling; negative regulation of organ growth) and associated differentiation processes (neural tube formation; keratinocyte differentiation; glial proliferation regulation; PI3K/Akt signaling). The shared theme is growth regulation during development and differentiation, making this a coherent label with moderate confidence given the single-count annotations per term.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032092","count":1},{"id":"GO:0046621","count":1},{"id":"GO:0001841","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0090090","count":1}]},{"hash":"1422335326815489595","title":"Translational control and mRNA decay","description":"This cluster centers on translation-related processes (translation, translational initiation/elongation/termination, and positive regulation of cytoplasmic translation) and mRNA turnover (deadenylation-dependent decay), with selenocysteine incorporation linking to a specialized translation pathway; a few outliers relate to antibiotic response and glial proliferation but do not define the core function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0045901","count":1},{"id":"GO:0001514","count":1},{"id":"GO:2000767","count":1}]},{"hash":"1548506648578520259","title":"Mitochondrial apoptosis and synaptic signaling","description":"This cluster highlights apoptotic signaling (apoptotic process; regulation of cytochrome c release) and neural/synaptic processes (ephrin signaling; synaptic vesicle recycling; postsynaptic receptor internalization), suggesting a theme around mitochondria-involved cell death coupled with synaptic regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0090199","count":1},{"id":"GO:0007605","count":1}]},{"hash":"583558467958327837","title":"Nuclear transport and mitotic regulation","description":"The top GO terms cluster around nuclear transport (mRNA export from nucleus, regulation of protein export from nucleus, Ran signaling) and mitotic processes (mitotic nuclear membrane reassembly, mitotic sister chromatid separation), with some notes on translation and protein modification. This suggests a group of proteins coordinating nuclear-cytoplasmic trafficking during mitosis, hence the label. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0031365","count":1},{"id":"GO:0043686","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0031030","count":1}]},{"hash":"2131620145063884692","title":"Cajal body\u2013associated RNA localization and telomere maintenance","description":"The terms cluster around scaRNA and telomerase RNA localization to the Cajal body and regulation of protein localization to this nuclear suborganelle, indicating a function centered on RNA processing/localization within Cajal bodies and telomere maintenance via telomerase. Some unrelated chaperone/misfolded protein terms are present but do not override the core theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":4},{"id":"GO:0051085","count":4},{"id":"GO:1904871","count":4},{"id":"GO:0002236","count":4},{"id":"GO:2000778","count":4}]},{"hash":"196954152487453810","title":"Mitotic spindle dynamics and chromosome alignment","description":"The top GO terms cluster around mitosis and microtubule-driven chromosome movements, including plus- and minus-end directed microtubule sliding, spindle elongation, and metaphase chromosome alignment/recapture, with supporting terms for cytokinesis and actomyosin ring assembly. This points to proteins involved in spindle dynamics and chromosome segregation during cell division, with related cytoskeletal processes as context.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0060404","count":3},{"id":"GO:1990942","count":3},{"id":"GO:0000911","count":3}]},{"hash":"1625589524694673751","title":"Microtubule organization and dynamics","description":"This cluster centers on microtubule cytoskeleton regulation, including minus-end directed microtubule sliding, establishment/maintenance of microtubule polarity, and regulation of microtubule-based processes, with additional involvement in axonemal microtubule dynamics and centrosome separation during mitosis. The cerebellar granular layer structural term and stress granule disassembly hint at neuronal and RNA-related contexts linked through microtubule transport and organization. Altogether, the proteins appear to function in coordinating microtubule architecture and remodeling across cellular contexts.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":4},{"id":"GO:0035617","count":4},{"id":"GO:0031534","count":4},{"id":"GO:0032886","count":4},{"id":"GO:0036334","count":4}]},{"hash":"134055415150569636","title":"Unknown","description":"The GO terms are a scattered mix (glycogen metabolism, locomotion, cell\u2013cell adhesion, signaling, ascospore formation) with several obsolete annotations, and there is no clear shared function or pathway linking the four proteins. With zero edges/triangles and no coherent theme, a specific representative name cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000324","count":1},{"id":"GO:0031987","count":1},{"id":"GO:0005977","count":1},{"id":"GO:0060316","count":1},{"id":"GO:0098609","count":1}]},{"hash":"2168690642046485325","title":"Fungal meiosis and ascospore formation","description":"The top GO terms include meiotic chromosome movement toward spindle pole and ascospore wall assembly, suggesting a focus on meiosis and sporulation in fungi. Additional terms tied to actin cytoskeleton and endocytosis support a fungal cellular remodeling context common to meiosis and spore formation. Some outlier terms (platelet aggregation, retina homeostasis) likely reflect cross-species noise rather than core function of this cluster, but the meiosis/ascospore signals predominate.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":2},{"id":"GO:0043983","count":2},{"id":"GO:0051592","count":2},{"id":"GO:0051666","count":2},{"id":"GO:0001895","count":2}]},{"hash":"2082211112191190646","title":"Ubiquitin-mediated immune signaling","description":"The terms point to ubiquitination processes (polyubiquitination, autoubiquitination) and immune functions (adaptive immune response, T cell proliferation regulation, NF-kB signaling), suggesting a theme of ubiquitin-dependent regulation within immune signaling pathways. While some terms are obsolete, the core pattern supports a role in tagging and signaling related to immune responses.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0009896","count":1},{"id":"GO:0046007","count":1},{"id":"GO:0048535","count":1}]},{"hash":"1761485515015357187","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1}]},{"hash":"1228878132185847523","title":"Unknown","description":"Top Terms show a mix of nuclear organization, muscle development and morphogenesis, autophagy, hormone response, cell cycle transitions, neurotransmitter secretion, and general cell shape regulation. The diversity and lack of a single cohesive function, along with zero edges or interactions, suggest these proteins do not share a common, interpretable function as a cluster. Therefore, Unknown with None confidence. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035191","count":1},{"id":"GO:0032972","count":1},{"id":"GO:0055010","count":1},{"id":"GO:0051384","count":1},{"id":"GO:0016237","count":1}]},{"hash":"1730979177369054454","title":"Developmental regulation and tissue differentiation","description":"The terms point toward developmental processes across multiple tissues: thyroid gland development, cortical layer formation, myoblast fusion, brown fat differentiation, and regulation of signaling pathways (JNK) and cell-matrix adhesion. There are also neural aspects (dopamine response, neuron maturation) and rhythmic processes, suggesting a broad theme of developmental regulation shaping tissue architecture and cell differentiation. However, no single, tightly shared function unites all terms, so the cluster is best described as a general developmental regulation/differentiation group.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030878","count":1},{"id":"GO:0001952","count":1},{"id":"GO:0048378","count":1},{"id":"GO:0048511","count":1},{"id":"GO:1903351","count":1}]},{"hash":"1333776363397472202","title":"LPS/TLR4 Innate Immune Signaling","description":"The four proteins cluster around innate immune responses to lipopolysaccharide (LPS) with terms for detection of LPS, LPS-mediated signaling, and TLR4 signaling (including MyD88-independent pathways). While there are also lipid metabolism terms, the dominant GO terms point to LPS/TLR4\u2013driven immune signaling, suggesting a coherent functional group centered on LPS recognition and TLR4 pathways.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031666","count":1},{"id":"GO:0051345","count":1},{"id":"GO:0034128","count":1},{"id":"GO:0032497","count":1},{"id":"GO:0034142","count":1}]},{"hash":"338317586866184514","title":"Developmental signaling and cytoskeletal regulation","description":"The GO terms point to embryonic development and tissue morphogenesis (dorsal root ganglion development, hair follicle placode formation), coupled with cell cycle control (negative regulation of mitotic cell cycle, positive regulation of cytokinesis) and cytoskeletal organization (actin regulation by cell-cell adhesion, anisotropic cell growth, Wnt pathway\u2013related effects). This suggests a cohesive theme of developmental signaling coordinating cell division and cytoskeletal dynamics during development. Some terms (vacuole inheritance, ribosomal import) are more general cellular processes but do not override the core developmental/cytoskeletal pattern.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045976","count":1},{"id":"GO:1990791","count":1},{"id":"GO:0000011","count":1},{"id":"GO:0032467","count":1},{"id":"GO:0010909","count":1}]},{"hash":"1463736327397322938","title":"Cross-tissue development and differentiation","description":"These GO terms point to developmental and differentiation processes across multiple tissues (thyroid gland, cortex, muscle, adipose) and include signaling (JNK), adhesion, and neuronal maturation. The common theme is tissue morphogenesis and specification rather than a single pathway, so \"Cross-tissue development and differentiation\" fits.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030878","count":1},{"id":"GO:0001952","count":1},{"id":"GO:0048378","count":1},{"id":"GO:0048511","count":1},{"id":"GO:1903351","count":1}]},{"hash":"1803728372432954675","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0031204","count":1}]},{"hash":"426940557509677526","title":"Unknown","description":"There is no shared GO signal among the proteins (Top Terms are empty), and with only four nodes and three edges, there is no clear functional theme to tie the members together, so a specific label can't be assigned.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1837745645499435950","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning metal ion transport, calcium homeostasis, hormonal response, and various biosynthetic/catabolic processes, with no evident shared pathway or interaction among the four proteins. The lack of connections (0 edges, 0 triangles) supports there being no cohesive function to label, so Unknown is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070574","count":1},{"id":"GO:0033574","count":1},{"id":"GO:0097755","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0071577","count":1}]},{"hash":"1871339524262608811","title":"Unknown","description":"This cluster includes terms from immune signaling (Toll/TLR9 pathways, defense to Gram-positive bacteria, dendritic cell cytokine regulation) and broad developmental processes (axonogenesis, zygotic axis specification, floral meristem growth), which do not converge on a single coherent function for all proteins. The mixed set makes a specific, representative label unlikely.","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0007352","count":2},{"id":"GO:0008063","count":2},{"id":"GO:1902350","count":2}]},{"hash":"1972070256094974775","title":"Unknown","description":"The terms cover several biosynthetic pathways (purine, tetrahydrofolate, amino acid biosynthesis) and include unrelated terms like neutrophil homeostasis and cardiac membrane depolarization, giving no single clear shared function for the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0009086","count":1},{"id":"GO:0001780","count":1},{"id":"GO:0000105","count":1},{"id":"GO:0009257","count":1}]},{"hash":"1305814304353468835","title":"Unknown","description":"Top terms are empty and there is no clear shared function among the proteins, so no reliable label can be assigned. The cluster appears functionally ambiguous with sparse connections.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"305842798050325295","title":"Chromosome segregation during mitosis and meiosis","description":"The top GO terms cluster around chromosome handling during cell division, with items like meiotic chromosome separation, mitotic chromosome condensation, mitotic sister chromatid separation, and mitotic nuclear membrane reassembly, indicating a shared role in chromosome segregation during M phase. Some terms related to vesicle trafficking appear but are less representative of the main function. Overall, the cluster seems centered on mitotic/meiotic chromosome segregation. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051307","count":1},{"id":"GO:0006622","count":1},{"id":"GO:0007084","count":1},{"id":"GO:0007076","count":1},{"id":"GO:0070262","count":1}]},{"hash":"978394253760332602","title":"Potassium homeostasis and membrane potential regulation","description":"The top GO terms cluster around potassium ion transport, intracellular potassium ion homeostasis, and regulation/stabilization of membrane potential, including cardiac repolarization, pointing to a shared role in maintaining cellular excitability via potassium channels/transporters. The mechanosensory term is less central but can relate to mechanosensitive potassium pathways in some contexts.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":1},{"id":"GO:0030322","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0060075","count":1},{"id":"GO:0098914","count":1}]},{"hash":"815208728209703450","title":"Axon Development and Neuron Projection Maintenance","description":"The GO terms point to axon development in a specific nerve, maintenance of neuron projections, and mitochondrial transport, suggesting a cluster centered on axon growth/maintenance with mitochondria moving along projections.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048929","count":1},{"id":"GO:1990535","count":1},{"id":"GO:0006839","count":1}]},{"hash":"915068121720618912","title":"Unknown","description":"The GO terms point to diverse developmental processes (brain regions like hippocampus/cerebral cortex and skin keratinocytes) plus general protein assembly and trafficking, with no single cohesive function uniting the cluster. This breadth makes a specific, representative label unlikely.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:0021766","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0003334","count":1},{"id":"GO:0021987","count":1}]},{"hash":"1977774193249445285","title":"Unknown","description":"There are no GO terms and no edges connecting these four proteins, so there is no clear shared function to name the cluster. Without terms to anchor a theme, the appropriate label is Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1850458649940806726","title":"Potassium Transport and Membrane Potential Regulation","description":"These proteins share a clear focus on potassium ion handling and the electrical properties of membranes: intracellular potassium homeostasis, potassium ion transmembrane transport, and regulation or stabilization of resting and action potential, including repolarization in cardiac tissue. The lone mechanosensory term may reflect a mechanosensitive channel context but does not alter the central theme of ion balance and membrane excitability.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":1},{"id":"GO:0030322","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0060075","count":1},{"id":"GO:0098914","count":1}]},{"hash":"135893516996738305","title":"Spliceosome and RNA processing","description":"The cluster\u2019s top GO terms overwhelmingly point to RNA metabolism, especially mRNA splicing and spliceosome assembly (spliceosomal complex, snRNP assembly, mRNA splicing), plus related processes like P-body assembly and mRNA decapping/processing. There are also signals of transcription termination and tRNA processing, suggesting a compact group of RNA processing/splicing factors. This makes a coherent functional theme of spliceosome- and RNA-processing machinery.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0000290","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0000245","count":2}]},{"hash":"753189300617760205","title":"Ribosome Biogenesis and Translation Regulation","description":"The cluster shows a strong convergence on translation-related processes: translation, cytoplasmic translation, translational elongation, tRNA modification, and ribosome biogenesis, pointing to proteins associated with the protein synthesis machinery. A few terms reference cell cycle or septum assembly, which may reflect broader cellular coordination, but the dominant theme remains ribosome function and translation control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0000747","count":2},{"id":"GO:1903833","count":2}]},{"hash":"175203876537827157","title":"Ribosome Biogenesis","description":"The top GO terms are dominated by ribosome-related processes, especially ribosomal large subunit assembly and ribosome biogenesis, pointing to a core role in assembling ribosomes. Other terms (pre-replicative complex assembly, UDP-N-acetylglucosamine biosynthesis, fungal-type cell wall biogenesis) are more divergent and may reflect broader cellular context or annotation noise, but the strongest signal across the cluster centers on ribosome assembly/biogenesis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000027","count":1},{"id":"GO:0006267","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0010197","count":1},{"id":"GO:0006048","count":1}]},{"hash":"2204640339046925904","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903999","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0018189","count":1},{"id":"GO:0019243","count":1},{"id":"GO:0070292","count":1}]},{"hash":"721124140984614126","title":"Chromatin organization and histone modification","description":"This cluster\u2019s top GO terms are dominated by chromatin-related processes (chromatin organization, regulation of histone acetylation, nucleoplasm localization), suggesting a shared nuclear/chromatin regulatory function. Other terms (ribosome biogenesis, plant development, apoptosis, metabolism) are present but less central, so the core theme appears to be chromatin regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035067","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0034644","count":1},{"id":"GO:0002903","count":1},{"id":"GO:0032066","count":1}]},{"hash":"481360481549706301","title":"Developmental signaling and DNA repair","description":"The proteins map to embryonic development (in utero), stress-related signaling (JNK cascade), and genome maintenance (transcription-coupled NER, DNA damage recognition, chromatin regulation), with supporting terms in translation regulation and proteasomal degradation. This mix suggests a broader theme of development-associated signaling coupled to genome maintenance, rather than a single specific pathway. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0007254","count":2},{"id":"GO:0090052","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0032436","count":1}]},{"hash":"2193387734344450069","title":"Unknown","description":"This cluster has no GO terms and no edges, so there is no clear shared function among its proteins. Without functional terms to guide labeling, the safe label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1090449283592438089","title":"Microtubule Organization and Dynamics","description":"This cluster is dominated by microtubule-related processes: organization and polarity of the cytoskeleton, minus-end directed sliding, depolymerization, and centrosome separation, with a neural context term (cerebellar granular layer structure) and a note on stress granule disassembly. The common theme is regulation and dynamics of microtubules in cellular organization.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":2},{"id":"GO:0035617","count":2},{"id":"GO:0031534","count":2},{"id":"GO:0032886","count":2},{"id":"GO:0036334","count":2}]},{"hash":"826496209943596485","title":"Unknown","description":"The top terms are scattered across viral replication, autophagy, stress response, protein processing, transport, and cytoskeleton activities, with no single dominant function linking the three proteins. Several terms are general or obsolete, indicating little cohesive functional signal to define a specific cluster name.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019079","count":1},{"id":"GO:0070414","count":1},{"id":"GO:0034214","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0051013","count":1}]},{"hash":"1345204570008847913","title":"SnoRNP Assembly and Telomerase RNA Processing","description":"These terms converge on RNA-protein complexes involved in RNA modification and telomere-related RNPs: box H/ACA snoRNP assembly, snoRNA-guided pseudouridylation of rRNA and snRNA, telomerase holoenzyme assembly and RNA stabilization/localization to Cajal bodies, and related ribosome biogenesis. The cluster thus reflects snoRNP biogenesis and telomerase RNA handling in the nucleus.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905323","count":1},{"id":"GO:0000454","count":1},{"id":"GO:1904874","count":1},{"id":"GO:0000493","count":1},{"id":"GO:0042254","count":1}]},{"hash":"520744278330234531","title":"Translation Initiation and Preinitiation Complex Formation","description":"The cluster is mainly defined by GO terms around translation initiation, including translation reinitiation and formation of the translation preinitiation complex (each with two proteins listed). Although other single-count terms touch on vesicle transport and actin regulation, they do not overshadow the clear translation initiation signal, so the cluster likely centers on initiating protein synthesis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001731","count":2},{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1}]},{"hash":"177069297494495119","title":"DNA replication and sister chromatid cohesion","description":"The top GO terms are dominated by DNA replication activity (DNA replication and synthesis of primer) and sister chromatid cohesion (establishment and positive regulation). This points to a core function in DNA replication and chromosome cohesion during S phase. While there are a few additional terms (hypoxia response, extracellular matrix organization, nonsense-mediated decay), they are peripheral compared to the replication and cohesion signals. Therefore, the cluster most plausibly represents proteins involved in DNA replication and sister chromatid cohesion.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0001666","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0070816","count":1},{"id":"GO:0045876","count":1}]},{"hash":"269939934484656066","title":"Transcriptional Regulation and Gene Expression","description":"The strongest signals are for transcription-related processes (DNA-templated transcription; negative regulation of transcription), suggesting the proteins act in controlling gene expression. There are also notes on regulatory phosphorylation and a vesicle-transport step, but the core theme appears to be transcriptional regulation, albeit with some mixed/obsolete terms. This makes the label representative but not perfectly cohesive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061587","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0071922","count":1}]},{"hash":"1366514375606464685","title":"Unknown","description":"This cluster has no top GO terms and no edges or connecting evidence, so there is no detectable shared function among the proteins; without functional signals, the safe label is Unknown with confidence None.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1270892419212757741","title":"Ion Transport and Salt Stress Homeostasis","description":"The cluster\u2019s top GO terms center on ion transport (sodium, potassium, proton) and homeostasis (cell volume, vacuolar acidification), plus a stress response (salt stress, methylglyoxal). This suggests proteins coordinating ionic balance and membrane potential under osmotic/salt conditions, possibly including ion transporters and proton pumps; the cardiac-conduction term appears as an outlier rather than a defining function. Overall, a cohesive theme around ion homeostasis and salt stress response justifies this label.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009651","count":1},{"id":"GO:0030007","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0098719","count":1},{"id":"GO:0006884","count":1}]},{"hash":"1249916641858435710","title":"Unknown","description":"No GO terms are provided for this cluster, and with only three proteins and no functional signals, there is no clear shared function to label.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1490229417765128360","title":"Unknown","description":"The GO terms span plant hormone signaling (ethylene), light perception (red/far-red phototransduction), metabolism (glucose and pyruvate pathways), protein folding, and even immune signaling, with no single unifying function. This suggests the proteins do not belong to one coherent pathway or process, so a specific, informative label cannot be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010105","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0006006","count":1},{"id":"GO:0033160","count":1},{"id":"GO:0006935","count":1}]},{"hash":"556171184555310828","title":"DNA Damage Response and Cell Cycle Control","description":"The top terms show DNA repair (including double-strand break repair via homologous recombination) and polyubiquitination, along with regulation of the cell cycle and apoptosis/necroptosis. A few terms touch immune signaling, but the core theme across the cluster is DNA damage response coupled with cell-cycle regulation and ubiquitin-mediated control. This makes \u201cDNA Damage Response and Cell Cycle Control\u201d the most coherent label among the given GO terms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0034121","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0071157","count":1}]},{"hash":"367186981214844413","title":"ER stress\u2013linked protein quality control","description":"This cluster centers on protein repair, ER stress response, and redox regulation (deglyathionylation, oxidative stress response), suggesting a shared role in maintaining protein integrity under ER and oxidative stress conditions. The small set of proteins aligns with protein quality control and redox homeostasis, though data are limited.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030091","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0033158","count":1}]},{"hash":"1362949510048922625","title":"Unknown","description":"The Top Terms span several unrelated processes (actin nucleation, DNA repair, aging, vesicle trafficking, cellular fusion, forebrain development, RNA splicing, rRNA maturation, and histone methylation), with no single dominant theme. This diversity suggests no cohesive function characterizes the entire cluster, likely reflecting annotation breadth or multi-function proteins rather than a shared pathway.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0090114","count":1}]},{"hash":"1728789732758621355","title":"Unknown","description":"There are only three proteins listed and no edges or GO term signals to tie them to a shared function. With no identifiable shared processes or annotations, a meaningful label cannot be inferred, so the cluster is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"154043157415096026","title":"Unknown","description":"The top GO terms span a highly diverse set of biological processes, including thyroid gland development, regulation of cell-matrix adhesion, lateral mesodermal fate specification, rhythmic processes, cellular response to dopamine, brown fat differentiation, neuron maturation, cortical layer formation, JNK signaling, and myoblast fusion. With only singleton terms and no edges connecting the proteins, there isn\u2019t a clear, cohesive function tying the cluster together. Therefore, this cluster is best labeled Unknown with no confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030878","count":1},{"id":"GO:0001952","count":1},{"id":"GO:0048378","count":1},{"id":"GO:0048511","count":1},{"id":"GO:1903351","count":1}]},{"hash":"2179231126195415274","title":"Unknown","description":"Top Terms are empty, and with only three proteins and a small edge count there is no evident shared function. Without functional annotations to tie the proteins together, a meaningful, cohesive label cannot be determined.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1068924767628669996","title":"Unknown","description":"These terms span extracellular matrix remodeling (basement membrane and collagen catabolic processes, bone resorption), peptide catabolism, development and morphogenesis (lung branching, decidualization), immune activity, and endocrine signaling, with no single cohesive function linking them all. ","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034769","count":2},{"id":"GO:0010813","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0001913","count":2}]},{"hash":"2161989707609767663","title":"Unknown","description":"The GO terms are highly diverse (mitochondrial inheritance, various lipid/sterol biosynthesis pathways, nitric oxide production, phosphorylation, and unrelated tissue-specific processes), with only a few weak connections and no clear shared function among the proteins. This makes a coherent cluster label impractical.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0032443","count":1}]},{"hash":"938060694781577139","title":"Unknown","description":"There are no GO terms or connections among these proteins (no edges, no terms), so there is no clear functional theme to assign; label Unknown due to lack of information.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1663115068906327853","title":"Unknown","description":"There are no shared edges or GO terms provided for this cluster, and the top terms list is empty. With no functional annotations or interactions to link the proteins, there is no clear common function to label; thus the cluster is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1114306889981253882","title":"Fatty acid metabolism and protein depalmitoylation","description":"This cluster centers on lipid-related processes, notably fatty acid metabolic process and depalmitoylation, with additional signals of lipid catabolism and membrane-associated protein trafficking. The presence of depalmitoylation links to membrane protein modification and potential regulation of Golgi-to-plasma membrane transport, suggesting a cohesive theme around lipid metabolism and membrane protein processing, despite some plant- or metabolite-specific terms that introduce noise.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006631","count":2},{"id":"GO:0042997","count":2},{"id":"GO:0002084","count":2},{"id":"GO:0015996","count":1},{"id":"GO:2000124","count":1}]},{"hash":"330437838898468135","title":"Cardiac conduction and heart development","description":"The top GO terms include membrane depolarization during AV node action potential, regulation of SA node cell action potential, and outflow tract morphogenesis, all pointing to cardiac electrical activity and heart formation. While other terms (e.g., cortisol biosynthesis, pain) are present, the strongest signals relate to heart rhythm and heart structure development, supporting a cardiac-focused cluster label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034767","count":1},{"id":"GO:0086045","count":1},{"id":"GO:0071642","count":1},{"id":"GO:0097497","count":1},{"id":"GO:0071320","count":1}]},{"hash":"1356210500405398103","title":"Cell cycle and protein complex assembly","description":"The dominant GO terms are cell cycle and cell division, together with protein heterooligomerization, pointing to coordination of cell-cycle progression and assembly of protein complexes as the cluster's core function. The presence of a few unrelated terms (cardiac development, glucocorticoid signaling, metal response) suggests minor annotation noise in a small cluster; with only three proteins and one edge, the core signal remains the cell-cycle/assembly theme. Therefore the label \"Cell cycle and protein complex assembly\" captures the main theme with Medium confidence.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007183","count":1},{"id":"GO:0032515","count":1}]},{"hash":"502494348144979287","title":"Nucleotide Salvage and Catabolism","description":"Based on the GO terms, the cluster centers on salvage and catabolic processes for nucleotides and nucleobases (guanosine, inosine, cytidine, uridine, purine/pyrimidine interconversion) and includes a noted NAD/Nicotinamide riboside salvage pathway, indicating proteins involved in recycling nucleotides rather than de novo synthesis.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006218","count":1},{"id":"GO:0006206","count":1},{"id":"GO:0006190","count":1},{"id":"GO:0015949","count":1},{"id":"GO:0006179","count":1}]}]