[{"hash":"1450627115609220114","title":"Redox Metabolism and Energy Production","description":"The cluster is enriched for central metabolism and redox-related processes: glycolytic and TCA cycle activity, oxidative stress responses (hydrogen peroxide), and redox homeostasis, suggesting proteins function together to generate energy while maintaining redox balance. Some terms like lipopolysaccharide biosynthesis and cell wall organization may reflect ancillary envelope-related roles in bacteria, but the dominant signal is metabolism linked to redox regulation.","confidence":"Medium","size":29,"edges":22,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0045454","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0071555","count":3}]},{"hash":"2001600286910764848","title":"RNA processing and ribosome biogenesis","description":"This cluster is dominated by RNA maturation and processing terms (rRNA maturation for SSU/LSU and tricistronic transcripts), plus transcription-related terms (DNA-templated transcription and splicing), indicating a shared focus on nucleic acid metabolism and ribosome assembly. Some terms (like cobalamin biosynthesis and SOS response) are broader or stress-related, but the core theme links RNA processing and transcription with ribosome biogenesis. ","confidence":"Medium","size":29,"edges":136,"triangles":285,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0006351","count":4}]},{"hash":"245401340302704477","title":"Ribosome biogenesis and translation machinery","description":"The cluster is enriched for translation and ribosome-related GO terms (translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit export from nucleus, mitochondrial translation, tRNA modification), reflecting core components of protein synthesis and ribosome assembly. The inclusion of cell cycle and cell division terms suggests coordination between ribosome production and proliferation, supporting a label focused on ribosome biogenesis and translation machinery.","confidence":"High","size":29,"edges":21,"triangles":9,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0046677","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0042254","count":6}]},{"hash":"1645238581421673358","title":"Unknown","description":"The top GO terms span a highly diverse set of processes (telomere localization, cell cycle transcription regulation, cell migration, chemokine production, meiotic recombination, mRNA stability, myeloid apoptosis, brown fat differentiation, thermoception) with little unifying theme, and there are no edges linking the proteins, suggesting no coherent functional cluster can be inferred from these annotations.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":3},{"id":"GO:0000083","count":3},{"id":"GO:0016477","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0010845","count":3}]},{"hash":"2070483288207714413","title":"Immune Signaling and Transcription Regulation","description":"This cluster centers on immune-related signaling and gene-expression control, with terms for NOD2 signaling, NF-kB regulation, vitamin D response, GPCR/PKC signaling, chemokine production, cell migration, and mRNA stability. The common thread is regulation of transcription and immune signaling rather than a single enzyme activity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":9},{"id":"GO:0070431","count":8},{"id":"GO:0032088","count":8},{"id":"GO:0033280","count":7},{"id":"GO:0007205","count":7}]},{"hash":"1361090896973205357","title":"Oxidative stress response and redox homeostasis","description":"The majority of top GO terms are redox-related\u2014oxidation-reduction process, redox homeostasis, and cellular oxidant detoxification\u2014indicating a shared function in managing cellular redox state and oxidative stress. A few terms (tRNA modification, RNA polymerase II regulation, etc.) are peripheral to the main theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0002098","count":2},{"id":"GO:0080058","count":2}]},{"hash":"1876261953105896333","title":"ER-Golgi trafficking and cell cycle proteins","description":"This cluster is dominated by ER-to-Golgi vesicle transport terms and cell division/mitotic cycle terms, suggesting a core theme of vesicular trafficking coupled to cell cycle processes. The additional brain development and dendrite regulation terms imply neural development context, but the primary shared function appears to be intracellular transport related to cell division. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0007420","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6},{"id":"GO:1990386","count":5}]},{"hash":"1959378151264418851","title":"Cell cycle, apoptosis, and metabolic regulation","description":"The top GO terms point to a mix of core cellular processes: cell cycle, apoptotic regulation, DNA-templated transcription, glucose metabolism and other metabolic controls, plus broader regulatory and stress-related terms. The lack of edges or a tight network suggests these proteins do not form a single cohesive pathway but rather span several related regulatory activities. Hence the label emphasizes the central themes of cell-cycle control, programmed cell death, transcriptional regulation, and metabolism as representative of this cluster, with some outlier terms like placenta development and response to cocaine indicating breadth rather than a focused function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001890","count":3}]},{"hash":"2303752693831797988","title":"Chemokine-driven immune cell migration","description":"The most represented terms are positive regulation of CXCL1 and CCL5 production and cell migration, pointing to immune signaling and leukocyte trafficking; other GO terms are more diverse and less central, but do not override this core theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070198","count":14},{"id":"GO:0000083","count":14},{"id":"GO:0016477","count":14},{"id":"GO:2000340","count":14},{"id":"GO:0010845","count":14}]},{"hash":"1305503643235993432","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by core protein synthesis processes: translation in general, initiation/elongation/termination of translation, and ribosome biogenesis, plus selenium incorporation. This pattern points to a cluster centered on the ribosome machinery and the protein synthesis apparatus, with secondary terms like mRNA decay and antibiotic response that are less defining. Overall, the dominant theme is translation-related functions.","confidence":"High","size":28,"edges":316,"triangles":2048,"max_degree":27,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":21},{"id":"GO:0046677","count":9},{"id":"GO:0006413","count":7},{"id":"GO:0014009","count":7},{"id":"GO:0000288","count":7}]},{"hash":"14952882167293526","title":"Copper-dependent protein maturation and trafficking","description":"The terms show a clear emphasis on copper: intracellular copper ion homeostasis and protein maturation by copper ion transfer, along with ER-to-Golgi vesicle transport, which fits copper-dependent processing in the secretory pathway. Other terms (cell cycle, transcription regulation, DNA repair, GTPase signaling, xenobiotic transport) are broader cellular processes and less central to copper biology, but may reflect housekeeping functions. Overall, the strongest signal is copper-associated maturation and trafficking, hence this label. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1210300937218473569","title":"Unknown","description":"The GO terms are spread across diverse biosynthetic and metabolic pathways (steroid hormone metabolism, retinoid/retinal metabolism, pigment synthesis, plant secondary metabolite pathways) along with development and stress-related processes, showing no coherent, single function that ties the cluster together. Therefore no confident, representative label can be assigned.","confidence":"","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006710","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0009710","count":3},{"id":"GO:0042574","count":3}]},{"hash":"1090165909083402461","title":"Lipid catabolism and Golgi trafficking","description":"Although there are no interactions in the network, the top GO terms point to lipid breakdown (monoacylglycerol, triglyceride, phosphatidylserine catabolic processes) and membrane trafficking between the Golgi and other compartments. This suggests a cohesive theme around lipid processing and Golgi-mediated transport, with some ancillary xenobiotic-related signals that may reflect broader membrane-lipid dynamics or annotation noise.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0006378","count":2},{"id":"GO:0043001","count":2},{"id":"GO:0006895","count":2}]},{"hash":"924518533685154049","title":"Developmental growth signaling and cell cycle regulation","description":"Top terms indicate coordination of development, proliferation, differentiation, and growth control (Wnt/Hippo signaling, DNA replication, centrosome cycle, morphogenesis, and keratinocyte differentiation). The cluster appears to center on developmental signaling coupled with cell cycle regulation rather than a single pathway, justifying a label that reflects both growth signaling and developmental processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":13},{"id":"GO:0006260","count":13},{"id":"GO:0030216","count":12},{"id":"GO:0035329","count":12},{"id":"GO:0090263","count":12}]},{"hash":"2147433853970309406","title":"Mitochondrial transport, metabolism, and stress response","description":"The cluster is dominated by mitochondrial-focused terms such as membrane fission, regulation of membrane permeability, and apoptotic mitochondrial changes, with several transport and metabolic terms (glycine import, thiamine pyrophosphate transport, manganese ion transport) and stress-related responses (amino acid starvation, IGF stimulus) suggesting a cohesive module of mitochondrial transport, metabolism, and stress-regulated apoptosis.","confidence":"Medium","size":28,"edges":18,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000002","count":19},{"id":"GO:0034198","count":18},{"id":"GO:0036233","count":18},{"id":"GO:0060546","count":18},{"id":"GO:0090149","count":18}]},{"hash":"530459133143049936","title":"Ubiquitination and Innate Immune Signaling","description":"This cluster centers on ubiquitination and related post-translational modifications (autoubiquitination, ERAD, sumoylation, K63-linked ubiquitination, neddylation) and ubiquitin-dependent proteolysis, with accompanying innate immune signaling terms (innate immune response, NF-kappaB regulation, TNF signaling). A mitotic cell cycle term appears but is less representative. Overall, the theme ties protein modification/degradation to immune signaling pathways.","confidence":"High","size":28,"edges":14,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":8},{"id":"GO:0016925","count":7},{"id":"GO:0070534","count":7},{"id":"GO:0045116","count":7}]},{"hash":"371227576964277079","title":"Rab-regulated Golgi-ER Vesicle Trafficking","description":"This cluster is dominated by GO terms related to transport between the ER, Golgi, and endosomes (COPII loading, ER-to-Golgi, recycling endosome to Golgi, late endosome to Golgi) and Rab-mediated regulation of vesicle trafficking, suggesting a cohesive role in the secretory pathway. A couple of terms (DNA-templated transcription, histone demethylation) are peripheral or noisy annotations. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0033169","count":2},{"id":"GO:0090110","count":2},{"id":"GO:0071955","count":2},{"id":"GO:1902953","count":2}]},{"hash":"1782552412270105889","title":"Calcium signaling and transcription regulation","description":"The set of GO terms shows a thread of regulatory and signaling roles, especially calcium-related control (negative regulation of calcium-release channel activity; regulation of synaptic vesicle endocytosis, which is calcium-dependent; skeletal muscle fiber development implying calcium\u2019s role in muscle function). There is also emphasis on transcriptional regulation (positive regulation of DNA binding) and ubiquitin-dependent protein catabolic processes that modulate signaling pathways. While there are also kidney development and xenobiotic response terms, the dominant theme points to regulation of calcium signaling and gene expression.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0048741","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0060315","count":2}]},{"hash":"1409173292035944826","title":"DNA replication and transcription regulation","description":"The top GO terms indicate core nuclear functions: DNA replication, mRNA splicing, chromatin remodeling, and transcription regulation by RNA polymerase II. While there are a few developmental or signaling terms present, the dominant theme is genome processing and gene expression control, supporting a label focused on nuclear DNA metabolism and transcription. Confidence: Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0014044","count":3}]},{"hash":"318625948078057477","title":"Spliceosome Components and RNA Processing","description":"The top GO terms are dominated by mRNA splicing and spliceosome assembly (e.g., mRNA splicing via spliceosome, spliceosomal snRNP assembly, spliceosomal complex assembly), indicating the cluster mainly comprises spliceosome machinery and related RNA-processing proteins; additional RNA-processing terms (tRNA processing, histone mRNA metabolism) are present but secondary.","confidence":"High","size":27,"edges":207,"triangles":803,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0000387","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0070317","count":3},{"id":"GO:0008334","count":3}]},{"hash":"1147580773719366488","title":"Redox Detoxification and Glutathione Metabolism","description":"Centered on cellular oxidant detoxification and redox homeostasis, with glutathione metabolism as a key component, indicating antioxidant defense. Additional processes like prostaglandin and cobalamin biosynthesis appear secondary but reflect broader metabolism.","confidence":"High","size":27,"edges":40,"triangles":18,"max_degree":9,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0055114","count":5},{"id":"GO:2000255","count":5},{"id":"GO:0009236","count":5}]},{"hash":"1384114861661082267","title":"Unknown","description":"The GO terms are scattered across DNA replication initiation, transcription regulation/termination, calcium signaling, cilium motility, and other disparate processes, with only a few terms represented each and no connections among proteins (edges/triangles are zero). This lack of a coherent, dominant function makes a reliable, specific cluster name unlikely. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006270","count":2},{"id":"GO:2000155","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0051209","count":1},{"id":"GO:0042769","count":1}]},{"hash":"1164557367866953056","title":"Unknown","description":"The GO terms are spread across energy metabolism (mitochondrial respiration), chromatin dynamics (chromatin remodeling and histone modification), and plant-specific processes (flavonol biosynthesis, cell wall biogenesis), with only single-term representation for each. There is no clear, shared functional theme linking the majority of proteins, so a specific, representative label cannot be confidently assigned.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0071919","count":1},{"id":"GO:1900386","count":1},{"id":"GO:0035066","count":1}]},{"hash":"1311278138750217252","title":"Calcium and zinc ion homeostasis","description":"The top GO terms are dominated by metal ion handling, including calcium import into mitochondria, zinc ion transport and detoxification, and cobalt ion homeostasis, suggesting a shared theme of ion transport and homeostasis. Some unrelated terms appear (myelin assembly, budding growth), but the strongest signals center on calcium and zinc/cobalt regulation, making this an informative cluster label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":2},{"id":"GO:0014898","count":2},{"id":"GO:0032288","count":2},{"id":"GO:0007118","count":2},{"id":"GO:0010043","count":1}]},{"hash":"1358556637547059857","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0045454","count":2},{"id":"GO:1990138","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0071555","count":2}]},{"hash":"1511147754433592529","title":"Plant secondary metabolism and hormone biosynthesis","description":"This cluster is dominated by plant-specific metabolic and developmental processes: strigolactone biosynthesis (a key plant hormone), stilbene catabolic and antibiotic biosynthesis (aromatic compound metabolism), and secondary shoot formation, all pointing to plant specialized metabolism and growth regulation. Some terms like regulation of endocannabinoid signaling may be annotation noise, but the core signals consistently indicate plant hormone\u2013related metabolism and development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":9},{"id":"GO:0042952","count":8},{"id":"GO:0055114","count":8},{"id":"GO:0046272","count":8},{"id":"GO:1901601","count":8}]},{"hash":"684320795649631523","title":"Cell Cycle and Proliferation","description":"This cluster is dominated by GO terms for cell division and the cell cycle (GO:0051301, GO:0007049), indicating enrichment for cell proliferation processes. Additional terms point to related differentiation and hormonal signaling (prostate gland development, male sex differentiation, steroid hormone receptor complex assembly) and apoptotic regulation, suggesting some interplay between growth and fate decisions. Some terms (e.g., photosynthesis, obsolete oxidation-reduction) may reflect broad or misannotated annotations, but the core theme centers on cell cycle control and proliferation.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0030850","count":5},{"id":"GO:0006463","count":5},{"id":"GO:0046661","count":5}]},{"hash":"1071144747554484717","title":"Regulated protein complexes and cell cycle control","description":"This cluster concentrates on the assembly and regulation of protein complexes (protein heterooligomerization; steroid hormone receptor complex assembly) and on cell-cycle transitions (metaphase/anaphase), with supporting terms for regulation of protein modification and stress responses (hydrogen peroxide, lead ion). While there are some outlier terms related to metabolism and development, the strongest common thread is regulatory protein interactions and cell-cycle control, suggesting a coherent functional theme across contexts.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":5},{"id":"GO:0007091","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0031400","count":4},{"id":"GO:0010288","count":4}]},{"hash":"514853377782249631","title":"Signaling Regulation and Muscle-Calcium Processes","description":"This cluster centers on terms that regulate signaling pathways (negative regulation of protein kinase activity; negative regulation of transcription regulatory region DNA binding) and calcium/muscle signaling (negative regulation of RyR calcium-release, regulation of muscle relaxation, guanylate cyclase activity), with additional context of glucocorticoid response and memory. The common thread appears to be regulatory control of signaling that impacts muscle function and calcium dynamics, even though some terms are more divergent (nurse cell transport, nephron development). Hence the label reflects a general theme of signaling regulation linked to muscle and calcium processes.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0031284","count":5},{"id":"GO:0035191","count":5},{"id":"GO:0051384","count":5},{"id":"GO:0007614","count":5}]},{"hash":"854999050087566632","title":"Ubiquitin-mediated proteolysis and cell cycle regulation","description":"The Top Terms show strong enrichment for ubiquitin-dependent protein catabolic processes, including SCF- and APC/C-mediated pathways, which are central to cell cycle control. This points to a cluster of proteins involved in targeted proteolysis during division. Additional terms for mRNA splicing, transcription, ribosome biogenesis, and actin nucleation indicate supporting roles in gene expression and cytoskeletal dynamics, but the dominant theme is regulated proteolysis tied to cell cycle progression.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":8},{"id":"GO:0070979","count":8},{"id":"GO:0051301","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0043547","count":7}]},{"hash":"2170275241950491348","title":"Unknown","description":"The top GO terms cover a broad mix of transcription regulation, chromosomal processes, sporulation, motility, chemotaxis, and even phototransduction/telomerase assembly, with no single cohesive function evident across the cluster. This dispersion suggests no unified biological theme for these 26 proteins, so a specific label isn\u2019t justified.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0006457","count":2},{"id":"GO:1905323","count":2},{"id":"GO:0071353","count":2}]},{"hash":"2273431620940421617","title":"Developmental RTK Signaling and Tissue Homeostasis","description":"The GO terms center on developmental growth signaling via receptor tyrosine kinases (including IGF signaling), mechanotransduction, and tissue-size homeostasis, with regulatory layers from ubiquitination and NF-kB control; together these points suggest a coordinated signaling module governing development and tissue maintenance.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0007169","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1588510206431250359","title":"Development and Morphogenesis","description":"The top GO terms are dominated by developmental and morphogenetic processes (neural tube development, bone morphogenesis, sclerotome development, imaginal disc-derived morphogenesis) with related transcriptional regulation and proliferation terms, suggesting a cluster focused on embryonic growth and tissue formation, despite some accompanying metabolic/transport terms that are less central.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090051","count":2},{"id":"GO:0060038","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006808","count":2},{"id":"GO:0007035","count":2}]},{"hash":"1185596911063263986","title":"P-body\u2013mediated mRNA decay","description":"Despite diverse annotations, the cluster is dominated by post-transcriptional regulation signals: deadenylation, poly(A) tail shortening, and cytoplasmic mRNA processing body assembly, which together indicate mRNA turnover via P-bodies. Some terms about development or immune function likely reflect broader biology or noise, but the core theme is mRNA decay/processing.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0071364","count":2}]},{"hash":"1062894299640837367","title":"Multisystem Developmental Signaling","description":"These proteins are annotated with developmental processes across tissues (skin development, heart/muscle morphogenesis) and broad signaling functions (calcium release from the sarcoplasmic reticulum, neuronal-like responses). The mix of developmental terms with signaling and behavior-related terms suggests a broad, cross-tissue theme rather than a single specialized pathway, so a label capturing multisystem development and signaling fits best.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0007614","count":2},{"id":"GO:0051260","count":2}]},{"hash":"553658033602937293","title":"Unknown","description":"The GO terms span widely from telomere localization and transcription regulation to cell migration, chemokine production, myeloid apoptosis, adipocyte differentiation, and thermoception, with no clear shared function tying the proteins together. This breadth suggests there isn\u2019t a single coherent biological theme to label the cluster with a specific function.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":8},{"id":"GO:0000083","count":8},{"id":"GO:0016477","count":8},{"id":"GO:2000340","count":8},{"id":"GO:0010845","count":8}]},{"hash":"1991907254834165724","title":"Unknown","description":"The top GO terms are highly diverse, spanning stress responses (hypoxia, salt stress), development (blastocyst development), regeneration (satellite cell activation), cell cycle exit (G1 to G0 transition), and various regulatory processes (sumoylation, proteolysis, apoptosis, germ-line sex determination). There is no clear, single biological theme linking these terms, and the cluster has no edges or coherent functional core, so a definite label cannot be assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0097264","count":1},{"id":"GO:0097050","count":1},{"id":"GO:0014718","count":1},{"id":"GO:0070315","count":1}]},{"hash":"7564086497429414","title":"Cardiac Ion Transport and Electrical Activity","description":"Dominated by potassium and sodium ion transport across the plasma membrane and membrane potential dynamics, with strong signals for cardiac-specific processes such as regulation of heart rate by cardiac conduction and cardiac muscle action potential involved in contraction. This suggests a cohesive theme of cardiac electrophysiology and ion-channel regulation. A few terms like skin development and multicellular organism development are present but do not overpower the cardiac signal.","confidence":"High","size":25,"edges":11,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0097623","count":10},{"id":"GO:1990573","count":10},{"id":"GO:0060081","count":10},{"id":"GO:0098719","count":9},{"id":"GO:0043588","count":9}]},{"hash":"427700370308182949","title":"Bacterial membrane biosynthesis and metal transport","description":"The top GO terms cluster around lipopolysaccharide biosynthesis and lipid-related dephosphorylation, along with transport and homeostasis of metal ions (copper, cadmium) and calcium. This combination points to membrane biogenesis and ion handling in bacteria as the core theme, with some outliers (antibiotic biosynthesis, stilbene degradation) that are less central to the cluster\u2019s main signal.","confidence":"Medium","size":25,"edges":239,"triangles":1236,"max_degree":24,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0006874","count":5},{"id":"GO:0046272","count":5}]},{"hash":"46017890839250","title":"Developmental transcriptional regulation of muscle and vasculature","description":"The top terms point to DNA-templated transcription and regulation of signaling and differentiation in development, notably myoblast differentiation and vasculogenesis, with Notch pathway modulation. This suggests a cluster of nuclear transcriptional regulators coordinating gene expression for muscle and vascular development, even though some older/histone modification terms are also present. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0045746","count":7},{"id":"GO:0045663","count":6},{"id":"GO:2001214","count":6},{"id":"GO:0036138","count":6}]},{"hash":"202696792510495536","title":"Developmental differentiation and intracellular transport","description":"The top terms cluster around diverse developmental processes (neural, nigra, muscle, blastocyst) plus fundamental cell biology (DNA replication, microtubule anchoring, ER-Golgi transport). This suggests a group of proteins involved in orchestrating development and the cellular infrastructure that supports it, rather than a single pathway.","confidence":"Medium","size":25,"edges":23,"triangles":12,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0030182","count":4},{"id":"GO:0070940","count":4},{"id":"GO:0021762","count":4}]},{"hash":"1440295212141470897","title":"Fatty Acid Biosynthesis and Transport","description":"The top GO terms are dominated by fatty acid biosynthetic and metabolic processes (fatty acid biosynthesis, long-chain and medium-chain fatty-acyl-CoA metabolism) and fatty acid import into cells, pointing to a cohesive lipid metabolism and trafficking theme. Some terms like seed coat development or bioluminescence appear as minor outliers and do not redefine the main function of the cluster. ","confidence":"High","size":25,"edges":70,"triangles":34,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0006633","count":6},{"id":"GO:0036112","count":6},{"id":"GO:1902987","count":6},{"id":"GO:0008218","count":5}]},{"hash":"1313421248852856931","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":10},{"id":"GO:0042273","count":9},{"id":"GO:0000462","count":9},{"id":"GO:0000466","count":9},{"id":"GO:0048026","count":9}]},{"hash":"596030882433334581","title":"Biosynthesis and Transcription Regulation","description":"The top GO terms point to diverse biosynthetic processes (colanic acid, phenylpropanoid, anthocyanin, galactose, glutamine) together with transcription-related activity (DNA-templated transcription, nitrogen catabolite repression of transcription). This pattern suggests a cluster linked to metabolic biosynthesis intertwined with transcriptional regulation, even though there are no edges connecting the proteins. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:1901006","count":5},{"id":"GO:0009242","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0001081","count":5}]},{"hash":"276503765074516847","title":"Cell cycle and stress signaling with protein trafficking","description":"The cluster is enriched for cell cycle processes and stress-related signaling, including protein ubiquitination, NOD2 signaling, and protein localization/migration (telomeric localization, plasma membrane maintenance, and cell migration). Although no edges are present and several terms are obsolete, the combined GO terms point to a cohesive theme of coordinating cell cycle progression with stress responses and intracellular trafficking.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0061408","count":8},{"id":"GO:0070431","count":8},{"id":"GO:0016567","count":8}]},{"hash":"1116428370785859082","title":"DNA Damage Response and RNA Regulation","description":"The top GO terms show a clear emphasis on DNA damage signaling and response, complemented by RNA-level regulation (miRNA silencing and mRNA stabilization), suggesting a central theme around stress-related signaling coupled with post-transcriptional control. However, the cluster also includes diverse terms (light detection, cell migration, germ cell development, PI3K/AKT signaling) and no observed network edges, indicating limited overall coherence. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000077","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0006975","count":2},{"id":"GO:0018298","count":2}]},{"hash":"431057015781912137","title":"Retroviral DNA Integration and Proviral Latency","description":"The GO terms cluster around steps of the retroviral life cycle\u2014host entry, nuclear penetration, RNA-templated DNA synthesis (reverse transcription), DNA integration, and proviral latency\u2014along with apoptotic activation and RNAi suppression. This pattern strongly indicates a viral infection/latency module centered on retroviral DNA integration.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0006278","count":4},{"id":"GO:0046718","count":3},{"id":"GO:0075732","count":3}]},{"hash":"572959255281976259","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033129","count":2},{"id":"GO:0070935","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0001707","count":2},{"id":"GO:0046827","count":2}]},{"hash":"47358563672812846","title":"Unknown","description":"The GO terms are highly diverse, spanning cytoskeletal signaling and phosphorylation control, hair follicle and bone development, phagocytosis, retina and endothelial barrier development, dendrite morphogenesis, and intracellular trafficking (Golgi inheritance, secretory granule localization). There is no single unifying function linking these terms, so a specific, representative label cannot be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0010801","count":2},{"id":"GO:0048820","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0006909","count":2}]},{"hash":"1500729893647095154","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":16,"triangles":3,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000472","count":11},{"id":"GO:0000480","count":11},{"id":"GO:0000466","count":11},{"id":"GO:0000463","count":11},{"id":"GO:0000398","count":11}]},{"hash":"1224803513313667244","title":"Secretion and Exocytosis Signaling","description":"The top GO terms point to secretory processes (neurotransmitter secretion, positive regulation of exocytosis) and signaling/modulation (guanylate cyclase activity, protein dephosphorylation), suggesting a cluster centered on vesicle trafficking and related signaling. Some terms are broader or unrelated (ribosomal export, visual perception), but the strongest signal is secretion-associated functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0008218","count":1},{"id":"GO:0007114","count":1}]},{"hash":"701502650303616700","title":"Transmembrane Transporters","description":"The cluster shows a consistent emphasis on transmembrane transport across membranes for a wide range of substrates, including xenobiotics, ions (sodium/potassium), nitrates, sugars/metabolites (fucose, 4-hydroxyphenylacetate), vitamins, and even neurotransmitter loading into synaptic vesicles. This pattern suggests a shared role for transporter proteins moving diverse molecules across membranes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006004","count":2},{"id":"GO:0071805","count":2}]},{"hash":"2101364288164185644","title":"Mitotic DNA replication machinery","description":"The top GO terms are dominated by mitotic DNA replication processes (initiation, elongation, preinitiation complex assembly, replication) and GINS complex assembly, indicating a coherent role in replication fork formation and progression during mitosis. A couple of developmental terms appear but at much lower frequency, likely noise. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043589","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0006810","count":1},{"id":"GO:0032508","count":1},{"id":"GO:0071165","count":1}]},{"hash":"623241534645928216","title":"Unknown","description":"The top GO terms span heat and mechanical stimulus responses, hormone signaling (vasopressin, salicylic acid), vitamin D response, heart development, chloroplast protein import, and cell cycle regulation\u2014covering diverse species and processes. There are no edges connecting the proteins, indicating a lack of a cohesive functional module, so a specific, representative label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":13},{"id":"GO:0003213","count":13},{"id":"GO:0033280","count":13},{"id":"GO:0071260","count":13},{"id":"GO:0045038","count":13}]},{"hash":"1096760506149121874","title":"Bacterial Biosynthesis and Antibiotic Response","description":"The top GO terms point to various biosynthetic processes (serine, fatty acids, lipopolysaccharide) and post-translational modification, along with sporulation, plus antibiotic-related biosynthesis and stress response, suggesting a cluster focused on microbial metabolism and antimicrobial interactions rather than a single narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006564","count":5},{"id":"GO:0042264","count":5},{"id":"GO:0030435","count":4},{"id":"GO:0009103","count":3}]},{"hash":"1237616781306023073","title":"Protein folding and trafficking","description":"The top GO terms cluster around chaperone-assisted refolding and unfolding, protein assembly (hexamerization), and intracellular transport processes (ER\u2192Golgi, peroxisomal import) plus SCF complex dynamics, pointing to a core theme of protein maturation, quality control, and trafficking. A few terms (DNA replication, mitotic cytokinesis, blastocyst development) are broader or outliers, suggesting some multifunctional members but the dominant signal is proteostasis and protein logistics.","confidence":"Medium","size":23,"edges":58,"triangles":58,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0015991","count":7},{"id":"GO:0000281","count":6},{"id":"GO:0034214","count":5}]},{"hash":"700508900659820222","title":"Unknown","description":"The top GO terms span DNA replication and repair together with diverse tissue-specific developmental and signaling processes (neuronal/ cerebellar development, glial differentiation, insulin and T cell signaling, cartilage formation, and sperm capacitation), suggesting no single cohesive function linking all proteins. This breadth makes a precise, representative label impractical.","confidence":"","size":23,"edges":161,"triangles":505,"max_degree":20,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006260","count":22},{"id":"GO:0006281","count":22},{"id":"GO:0048679","count":22},{"id":"GO:0008286","count":22},{"id":"GO:0050852","count":22}]},{"hash":"381195523644782335","title":"Cell fate and proliferation signaling","description":"GO terms cluster around cell fate decisions and growth control (keratinocyte differentiation, DNA replication, Hippo/Wnt signaling, VEGF response), plus apoptosis and nuclear export regulation, indicating a broad, tissue-spanning signaling theme.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030216","count":14},{"id":"GO:0006915","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0006260","count":14},{"id":"GO:0090263","count":14}]},{"hash":"52488120642631152","title":"Deoxyribonucleotide biosynthesis and cell cycle","description":"The cluster\u2019s top terms are dominated by deoxyribonucleoside/biosynthesis and salvage pathways (TMP biosynthesis, dGTP metabolism, deoxyguanosine salvage, deoxyribonucleoside monophosphate biosynthetic process), together with cell cycle and cell division terms. This points to a shared function around DNA precursor production and its link to replication/cell-cycle progression, with mitochondria-related electron transport contributing context to cellular energy needs. ","confidence":"Medium","size":23,"edges":27,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":2},{"id":"GO:0046475","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0046070","count":1}]},{"hash":"2254720395103002055","title":"Diverse Metabolite Biosynthesis","description":"The top GO terms point to a range of biosynthetic and metabolic processes across different compound classes\u2014pigments (melanin, retinal, retinoic acid), hormones (testosterone, androgen catabolic), plant alkaloids (tropane alkaloid), vitamins (phylloquinone), a storage polymer (polyhydroxybutyrate), and related redox/antibiotic response processes. This pattern indicates a cluster enriched for diverse biosynthetic pathways rather than a single pathway, justifying a broad label like Diverse Metabolite Biosynthesis.","confidence":"Medium","size":23,"edges":87,"triangles":129,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":20},{"id":"GO:0042619","count":17},{"id":"GO:0006710","count":16},{"id":"GO:0046677","count":16},{"id":"GO:0009710","count":16}]},{"hash":"1315049797283271962","title":"Endomembrane vesicle trafficking","description":"The terms cluster around intracellular vesicle trafficking and sorting within the endomembrane system: retrograde transport from endosomes to the Golgi, endocytic recycling, Golgi-to-vacuole and lysosomal transport, and dense core granule transport. These shared themes support a function in vesicle formation and cargo routing. A miRNA metabolic process term appears, but it is not central to the dominant trafficking theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010586","count":2},{"id":"GO:0090326","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0090156","count":1},{"id":"GO:0060378","count":1}]},{"hash":"2060712904314944239","title":"Nuclear transcription and RNA processing","description":"The cluster is dominated by GO terms tied to nuclear gene expression, notably mRNA processing and DNA-templated transcription, suggesting the proteins function in RNA processing and transcription regulation within the nucleus. Additional terms cover ubiquitination and modest immune-related responses, which may reflect ancillary roles or shared annotations rather than a single cohesive function. Given no interaction edges, the core theme appears to be nuclear gene expression machinery.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1722160742431184057","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0051013","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0006888","count":3}]},{"hash":"1525507995049607179","title":"Mitochondrial membrane dynamics and apoptosis regulation","description":"The top GO terms cluster around mitochondrial processes\u2014membrane fission, regulation of mitochondrial membrane permeability, apoptotic mitochondrial changes, and necroptosis regulation\u2014with supporting transport and metabolic functions (thiamine pyrophosphate, manganese) and stress-response signals. Together they point to a cohesive theme of mitochondrial membrane dynamics, metabolic transport, and programmed cell death, despite some peripheral stress signaling terms.","confidence":"High","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":5},{"id":"GO:1990314","count":5},{"id":"GO:0034198","count":4},{"id":"GO:0036233","count":4},{"id":"GO:0060546","count":4}]},{"hash":"2108773057362697021","title":"Ribosome Biogenesis and Translation","description":"The cluster is enriched for translation-related GO terms (cytoplasmic and mitochondrial translation), ribosome biogenesis, ribosomal subunit assembly, and initiation/termination of translation, plus rRNA maturation. This pattern indicates the proteins function together in ribosome assembly and protein synthesis, covering both cytosolic and mitochondrial translation components.","confidence":"High","size":22,"edges":228,"triangles":1483,"max_degree":21,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":18},{"id":"GO:0042254","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0002181","count":4},{"id":"GO:0042274","count":4}]},{"hash":"1605383214759079422","title":"Unknown","description":"The top terms are scattered across meiosis, epigenetic regulation, various sugar nucleotide metabolisms, and multiple membrane transport processes, with no clear unifying function or interaction pattern; plus there are obsolete terms and zero edges, making a cohesive cluster label unreliable.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006311","count":2},{"id":"GO:0006306","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006011","count":2},{"id":"GO:0052573","count":2}]},{"hash":"107549374378978897","title":"Unknown","description":"GO terms are heterogeneous: chromatin remodeling and ribosomal subunit biogenesis (nuclear processes) coexist with multiple membrane transport/metabolism terms (potassium, sodium, nitrate, 4-hydroxyphenylacetate transport) and a neurotransmitter loading term; the scattered functions and minimal connectivity imply no single cohesive function.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0006004","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0042891","count":1}]},{"hash":"1620054121909944972","title":"Telomere maintenance and telomerase regulation","description":"The top terms cluster around telomere biology, including positive regulation of telomere maintenance via telomerase, telomere capping, and localization to telomeric regions, suggesting a shared focus on telomere regulation. Some nodes relate to other processes (mRNA processing, cell migration), but the dominant theme is telomere maintenance and telomerase activity.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001275","count":12},{"id":"GO:0016477","count":11},{"id":"GO:0006397","count":11},{"id":"GO:1904355","count":11},{"id":"GO:0032212","count":11}]},{"hash":"1109082070621046422","title":"tRNA processing and translation","description":"The strongest signals in this cluster are tRNA processing, translation, and tRNA aminoacylation (methionyl- and leucyl-tRNA), pointing to core components of the protein synthesis machinery. While other GO terms such as deubiquitination or transcription regulation appear, the dominant theme is RNA processing and translation, guiding a concise label of translation-related function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0035023","count":3}]},{"hash":"286879738436464237","title":"Myeloid immune cell migration and cytokine production","description":"The most represented GO terms point to immune cell behavior, especially myeloid cell migration, apoptosis in myeloid cells, and positive regulation of a chemokine (CXCL1) production, suggesting an innate immune response and chemokine signaling theme. Other terms (nuclear localization, transcriptional regulation, mRNA stability) seem ancillary or noisy, so I label the core function as immune cell migration and cytokine production.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":15},{"id":"GO:0098907","count":15},{"id":"GO:0070198","count":14},{"id":"GO:0000083","count":14},{"id":"GO:0016477","count":14}]},{"hash":"1297527308636290508","title":"Cell Fate Signaling and Transcription Regulation","description":"The Top Terms suggest a regulatory module combining transcriptional control with multiple signaling pathways (Wnt, Hippo, T cell receptor) and differentiation processes (keratinocytes, visual perception) along with apoptosis and cell cycle activity, indicating coordinated control of cell fate, growth, and differentiation. An outlier term about obsolete lysine biosynthesis is likely noise.","confidence":"Medium","size":21,"edges":72,"triangles":143,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0019878","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0030216","count":6},{"id":"GO:0006915","count":6}]},{"hash":"901011336557739424","title":"Muscle and cytoskeleton remodeling","description":"Top terms cluster around cytoskeletal organization and muscle/fat tissue remodeling (spindle assembly, actin filament bundle assembly, skeletal muscle tissue regeneration, fat cell differentiation), with broader associations to gene expression and proliferation (mRNA processing, telomere maintenance, SA node action potential). The mix suggests a general remodeling theme rather than a single precise pathway, hence a label focused on muscle/cytoskeleton remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051225","count":13},{"id":"GO:0043403","count":13},{"id":"GO:0051017","count":13},{"id":"GO:0007205","count":13},{"id":"GO:0006397","count":13}]},{"hash":"1273105295623830724","title":"Mitotic control and transcription regulation","description":"The cluster is dominated by mitosis-related terms (mitotic cell cycle, anaphase-promoting complex-dependent catabolic process) and DNA-templated transcription, with additional RNA quality control (nonsense-mediated decay) terms, suggesting a cohesive module linking cell-cycle progression to transcription and mRNA surveillance. Some stress-related terms (cadmium response, defense to Gram-positive bacteria) might reflect broader regulatory contexts but do not define the core theme. Overall, the proteins appear to coordinate cell-cycle control with gene expression and RNA decay.","confidence":"Medium","size":21,"edges":13,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0071276","count":3}]},{"hash":"307920108588236326","title":"Transcriptional Regulation and Growth Signaling","description":"This cluster is enriched for transcription-related processes (DNA-templated transcription), regulation of nuclear export, cell cycle control, and signaling pathways (including TGF-beta signaling). The inclusion of development-associated terms (cerebral cortex development, visual perception) alongside core regulatory processes suggests proteins involved in coordinating gene expression with growth and developmental signaling. Overall, the pattern points to transcriptional regulation coupled with growth/signaling pathways, though neural-development terms may reflect broader developmental roles.","confidence":"Medium","size":21,"edges":97,"triangles":300,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":8},{"id":"GO:0006351","count":6},{"id":"GO:0048240","count":5},{"id":"GO:0021987","count":5},{"id":"GO:0045793","count":5}]},{"hash":"2089674694718390916","title":"Embryogenesis and Organogenesis","description":"The top GO terms cluster around embryo development and formation of tissues and organs: endocrine system development, cartilage morphogenesis, left/right pattern formation, endocardial cushion EMT, placenta-related differentiation, trophoblast differentiation, and pancreatic cell development. These collectively define broad developmental programs during embryogenesis and organ formation, with supporting cell cycle processes like mitotic division and centrosome localization. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2}]},{"hash":"2196413835971515695","title":"Protein kinase signaling and cell cycle regulation","description":"This cluster is dominated by terms related to kinase activity, including positive regulation of serine/threonine kinase activity and protein autophosphorylation, along with cell cycle processes (mitotic and general), and hints of GPCR-associated signaling and hypoxia response, suggesting a cohesive role in signaling control that governs cell cycle progression. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0098907","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0000278","count":6}]},{"hash":"546274344672295209","title":"Unknown","description":"The top GO terms are highly diverse, spanning calcium ion transport, phosphorylation, chromosome telomere localization, G1/S transcriptional regulation, cell migration, chemokine production, meiotic recombination, mRNA stability, myeloid apoptosis, and brown fat differentiation. There is no single coherent biological process uniting these terms, so the proteins likely participate in multiple unrelated functions rather than one clear theme.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0070198","count":1},{"id":"GO:0000083","count":1},{"id":"GO:0016477","count":1}]},{"hash":"206764470382400405","title":"Intracellular Signaling and Transcription","description":"This cluster centers on GO terms related to intracellular signal transduction and transcriptional regulation, with several terms tying signaling to transcriptional outcomes (e.g., DNA-templated transcription, NOD2 signaling) and ancillary notes on autophagy regulation and mechanoresponsive/differentiation processes. The shared theme appears to be signaling pathways that converge on transcriptional control and cellular stress/differentiation responses, even though the specific terms span immune signaling, autophagy, and development.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0016239","count":2},{"id":"GO:0070431","count":2}]},{"hash":"24299774521586522","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":3},{"id":"GO:0006895","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0070129","count":1}]},{"hash":"1735383927628436063","title":"Unknown","description":"The proteins show a highly diverse mix of GO terms (microautophagy, trehalose response, lipid remodeling and signaling, cell wall carbohydrate metabolism, and defense-related biosynthesis) with no linking function and no edges between members. This lack of a cohesive theme makes a confident, representative label infeasible.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034727","count":1},{"id":"GO:0071327","count":1},{"id":"GO:0019369","count":1},{"id":"GO:0036155","count":1},{"id":"GO:0007216","count":1}]},{"hash":"1338297272830583097","title":"Neural development and sensory signaling","description":"This cluster is enriched for neural and sensory terms (dopaminergic synaptic transmission, visual perception, neuron maturation), with related developmental and transcriptional activity, suggesting a core function in neural development and sensory processing, despite some ancillary metabolic/developmental terms present.","confidence":"Medium","size":20,"edges":25,"triangles":11,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0001963","count":6},{"id":"GO:0060716","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0014850","count":6}]},{"hash":"1717419033301304080","title":"Central carbon metabolism","description":"The cluster is dominated by terms for core energy metabolism: glycolysis, the tricarboxylic acid cycle, and oxaloacetate metabolism, along with several amino acid catabolic processes (alanine, valine, lysine, kynurenine). These indicate a cohesive theme of central carbon breakdown and energy production, with a few outlier annotations (Notch signaling, antibiotic biosynthesis) that are less representative of the group's main function. ","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0033512","count":7},{"id":"GO:0042853","count":6},{"id":"GO:0006096","count":6},{"id":"GO:0006107","count":5}]},{"hash":"2191545167738400294","title":"Developmental Regulation and Proliferation","description":"The top GO terms cluster around developmental processes (multicellular organism development, cartilage condensation, sperm capacitation, neuron maturation regulation) and core cellular activities (DNA-templated transcription, DNA replication, mitotic cell cycle), suggesting a theme of developmental regulation tied to cell growth and differentiation; some terms related to immune signaling and sensory responses are present but appear less central to the main theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009636","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0006260","count":4}]},{"hash":"2008994330869969660","title":"Synaptic Vesicle Exocytosis and Inhibitory Signaling","description":"The cluster is enriched for terms related to presynaptic organization and neurotransmitter release (neurexin clustering, presynaptic membrane assembly, positive regulation of synaptic vesicle exocytosis) and modulation of receptor activity and inhibitory signaling (positive regulation of AMPA receptor activity, inhibitory postsynaptic potential), indicating a cohesive module governing synaptic transmission and the balance of excitation and inhibition. While a few terms (osteoblast development, folic acid response) are unrelated to neurons, they do not obscure the dominant synaptic theme. Therefore, this label accurately reflects the cluster\u2019s main function.","confidence":"High","size":20,"edges":179,"triangles":955,"max_degree":19,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042493","count":7},{"id":"GO:0055114","count":5},{"id":"GO:2000302","count":5},{"id":"GO:0051593","count":5},{"id":"GO:1904862","count":5}]},{"hash":"2191216663357608630","title":"Amino Acid Catabolism and Central Metabolism","description":"The cluster is dominated by amino acid catabolic processes (lysine, alanine, tryptophan) and linked central metabolic pathways (oxaloacetate, fatty acids, porphyrin biosynthesis). While Notch signaling and fruit ripening terms appear, they are less represented and likely annotation noise; overall the group seems to reflect metabolism of amino acids and central carbon metabolism, hence the proposed label.","confidence":"Medium","size":20,"edges":175,"triangles":900,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033512","count":12},{"id":"GO:0042853","count":10},{"id":"GO:0019878","count":9},{"id":"GO:0006782","count":9},{"id":"GO:0007219","count":9}]},{"hash":"430554459764714351","title":"Virus entry and host response","description":"This cluster is dominated by GO terms related to viral entry (fusion of viral membrane with host), viral life cycle, and immune cell movement (leukocyte migration), implying a viral infection/host-response theme. Some terms (e.g., sepal formation, UV-A response) appear as noise or cross-species annotations, but the core signal aligns with virus-host interactions and infection processes.","confidence":"Medium","size":20,"edges":71,"triangles":141,"max_degree":12,"top_function":"protein folding","top_go_terms":[{"id":"GO:0019064","count":6},{"id":"GO:0030260","count":6},{"id":"GO:0006457","count":6},{"id":"GO:1901407","count":6},{"id":"GO:0048453","count":6}]},{"hash":"187338102990769226","title":"Signaling Pathway Regulation","description":"The top terms highlight negative regulation of BMP/TGF-\u03b2 signaling, SMAD complex assembly regulation, and peptidyl-threonine dephosphorylation, all pointing to modulation of signal transduction and transcriptional control. Some plant- or organelle-specific terms are present, but the core theme across the cluster is regulation of signaling pathways.","confidence":"Medium","size":20,"edges":77,"triangles":94,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":4},{"id":"GO:0030512","count":4},{"id":"GO:0010991","count":4},{"id":"GO:0010074","count":4},{"id":"GO:0061191","count":4}]},{"hash":"193968633287375971","title":"Cellular stress response and transcription","description":"The cluster centers on cellular responses to oxidative and chemical stress (singlet oxygen, copper, arsenite, nitroglycerin, diamide, gamma radiation) and unfolded protein, with DNA-templated transcription also represented, suggesting coordinated transcriptional regulation during stress.","confidence":"Medium","size":20,"edges":12,"triangles":0,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000304","count":1},{"id":"GO:0071280","count":1},{"id":"GO:1903936","count":1},{"id":"GO:0070207","count":1}]},{"hash":"2238489875702361104","title":"Unknown","description":"The top GO terms cover RNA processing (rRNA maturation and mRNA decapping) and stress granule assembly, but also vesicle-related processes (synaptic vesicle coating, clathrin-dependent endocytosis, intracellular transport) and various development terms (root meristem growth, skeletal muscle development, lung saccule development). The mix of functions is broad and lacks a single coherent biological theme, so a unified label could not be confidently assigned.","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0034063","count":2},{"id":"GO:0031087","count":2},{"id":"GO:0016183","count":1},{"id":"GO:0072583","count":1}]},{"hash":"1925960630560025265","title":"Neural development and glial differentiation","description":"This cluster is enriched for neural development\u2013related processes, including oligodendrocyte differentiation, neural crest cell migration, and neuroblast division, which strongly point to glial and neuronal differentiation programs. While a few terms describe development in non-neural tissues (cornea and bronchus cartilage), the preponderance of neural lineage terms suggests the cluster primarily captures neurodevelopmental processes and glial lineage specification.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061408","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0046360","count":1},{"id":"GO:0090579","count":1},{"id":"GO:0060532","count":1}]},{"hash":"2283015629804978291","title":"Cytokine production and nociception signaling","description":"This cluster is dominated by terms for chemokine and inflammatory mediator production (CXCL1, CXCL5, MIP-1\u03b1) and for sensory/nociceptive processes (thermoception and pain detection). These common threads point to inflammation-related communication and pain signaling as the defining theme, with some outliers representing broader cellular processes. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0051209","count":3},{"id":"GO:2000340","count":3},{"id":"GO:1903444","count":3},{"id":"GO:0050960","count":3}]},{"hash":"1647101104163051283","title":"Chromatin Regulation via Ubiquitination","description":"The top GO terms emphasize ubiquitination control (negative regulation of protein ubiquitination; K33-linked ubiquitination) and chromatin state (rDNA heterochromatin formation), suggesting a cohesive theme around how ubiquitin signaling modulates chromatin structure. Some immune-related terms appear but likely reflect incidental annotations, not cluster-wide functions. Confidence: Medium.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:0070933","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0010039","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1745413164436385666","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0009736","count":2},{"id":"GO:0006457","count":2}]},{"hash":"269319737480759276","title":"Lipid and carbohydrate biosynthesis","description":"This cluster\u2019s top GO terms are dominated by lipid biosynthetic processes (glycolipid and phospholipid) and carbohydrate metabolism (sucrose), with additional biosynthesis-related terms for polyamines, cobalamin, and mycothiol. The common thread is biosynthesis of diverse small molecules and membrane components, suggesting a coordinated metabolic biosynthesis role. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009247","count":4},{"id":"GO:0008654","count":4},{"id":"GO:0009405","count":4},{"id":"GO:0097502","count":4},{"id":"GO:0006596","count":3}]},{"hash":"1948418734300121412","title":"Neural development and migration signaling","description":"Based on the top GO terms, the cluster is enriched for neural development processes (midbrain morphogenesis, mushroom body development) as well as cellular migration and signaling (cell migration, substrate adhesion-dependent spreading, activation of GTPase activity, calcium release, GPCR signaling). The combination of brain development terms with cytoskeletal remodeling and calcium/GTPase\u2013mediated signaling suggests proteins functioning in neuronal development and neuronal migration/signaling pathways. While a few terms touch on other processes (e.g., vascular remodeling), the strongest signals center on neural development and migratory signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0007205","count":2},{"id":"GO:2001275","count":2},{"id":"GO:1900026","count":2}]},{"hash":"871065233210119789","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006919","count":2},{"id":"GO:0006620","count":1},{"id":"GO:0051083","count":1},{"id":"GO:1904798","count":1},{"id":"GO:0090074","count":1}]},{"hash":"1708587198802180096","title":"Embryonic Development and Morphogenesis","description":"The terms cluster around embryonic development and tissue formation, including endocrine system development, cartilage morphogenesis, left/right patterning, and endocardial cushion EMT, with supporting hints from placental and pancreatic cell development. A few items (e.g., hypoxia response) fit developmental contexts, indicating this group broadly reflects developmental programs rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1443963292972284746","title":"Gene Expression and Biosynthesis","description":"These proteins show a mix of transcription-related terms (DNA-templated transcription, RNA methylation, ribosomal subunit export) together with cell growth/division and various biosynthetic processes (cobalamin, biotin, antibiotic biosynthesis). The cluster seems to reflect general gene expression machinery alongside diverse metabolic/biosynthetic pathways, rather than a single cohesive function. Confidence: Medium","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0016049","count":6},{"id":"GO:0042220","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0009236","count":5}]},{"hash":"1356667246396629192","title":"Unknown","description":"The top GO terms cover highly diverse processes (G2/M of mitotic cell cycle, cytokinesis, cell budding, vacuole fusion, bioluminescence, calcium release regulation, guanylate cyclase signaling, protein dephosphorylation, protein monoubiquitination, and transcription regulation) with no clear single theme or common pathway tying them together, so a coherent, specific label cannot be assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0008218","count":3},{"id":"GO:0010880","count":3},{"id":"GO:0007114","count":3}]},{"hash":"1528718428276186103","title":"Immune cell chemokine signaling and migration","description":"The top GO terms point to chemokine production (e.g., CXCL1, CXCL5) and cell migration, indicating immune signaling and movement of myeloid cells. Supporting terms like myeloid apoptotic process further align with immune cell biology. Some other terms (transcription regulation, mRNA stability, telomere localization) seem peripheral, but the core theme centers on chemokine-mediated immune responses and cell trafficking.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0016477","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0010845","count":4}]},{"hash":"1594223974733095923","title":"Unknown","description":"This cluster presents a broad and disparate mix of functions: cell growth, chromosomal telomere localization, G1/S transcription regulation (obsolete term), cell migration, chemokine production, meiotic recombination regulation, mRNA stability, myeloid cell apoptosis, brown fat differentiation, and thermoception. There isn\u2019t a single coherent biological theme or pathway that unifies these terms, making it hard to assign a concise, representative label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":5},{"id":"GO:0070198","count":3},{"id":"GO:0000083","count":3},{"id":"GO:0016477","count":3},{"id":"GO:2000340","count":3}]},{"hash":"381016997908227890","title":"DNA replication and chromosome segregation","description":"Cluster appears enriched for cell cycle and chromatin-related processes: cell division, DNA replication, and CENP-A chromatin assembly. This suggests a core function in genome duplication and proper chromosome segregation during mitosis. Other terms on the list involve protein processing and trafficking, which may be ancillary or reflect shared components, but the dominant theme supports mitotic chromosome maintenance.","confidence":"Medium","size":19,"edges":56,"triangles":41,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0034214","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0043335","count":7},{"id":"GO:0016562","count":7}]},{"hash":"1427281066251199428","title":"Neural development and synaptic plasticity","description":"This cluster centers on neural development and function: Schwann cell development, axonogenesis, and long-term synaptic potentiation, with additional signals tied to neuronal activity and development. The mitotic and apoptotic terms may reflect progenitor proliferation during development, while the abscisic acid pathway appears unrelated (likely noise). Overall, the strongest shared theme is neural development and synaptic plasticity.","confidence":"Medium","size":19,"edges":27,"triangles":9,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":12},{"id":"GO:0010800","count":12},{"id":"GO:0043065","count":12},{"id":"GO:0014044","count":12},{"id":"GO:0060291","count":12}]},{"hash":"1389916391919848207","title":"Cardiac and brain development with transcriptional regulation","description":"The proteins in this cluster are enriched for heart development and cardiac muscle differentiation, alongside brain development terms (cerebellar cortex and hippocampus development) and transcription-related processes (DNA-templated transcription and transcription factor activity). This suggests a cohesive theme around developmental regulation in cardiac and neural tissues, mediated by transcriptional control mechanisms.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000727","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0021695","count":2},{"id":"GO:0007507","count":2}]},{"hash":"2107665668489774974","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":112,"triangles":458,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0042273","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0000027","count":3}]},{"hash":"856819621770663199","title":"Ribosome Biogenesis and Genome Maintenance","description":"This cluster is dominated by GO terms for translation, ribosome biogenesis, and rRNA maturation, with notable signals for DNA replication, nucleotide-excision repair, and SOS response. The combination suggests a group of proteins tied to both protein synthesis machinery and genome maintenance/repair pathways, rather than a single narrow function. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0009432","count":2}]},{"hash":"1631394820337774697","title":"Cell Cycle and Transcriptional Machinery","description":"The top GO terms cluster around mitotic cell cycle, DNA replication, DNA-templated transcription, and mRNA processing, indicating core cellular growth and gene-expression machinery. The other terms (developmental and stress/immune responses) are more context-specific and don\u2019t redefine the cluster\u2019s central theme. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0001843","count":5}]},{"hash":"890196120732971240","title":"Unknown","description":"Top terms are diverse and span nuclear processes (chromosome telomere localization, transcription regulation, mRNA stability), cell behavior (cell migration, myeloid apoptosis, brown fat differentiation), and immune signaling (chemokine production). There is no clear, unifying biological process tying these terms together, so a cohesive label is not identifiable.","confidence":"","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":1},{"id":"GO:0000083","count":1},{"id":"GO:0016477","count":1},{"id":"GO:2000340","count":1},{"id":"GO:0010845","count":1}]},{"hash":"65607621619890446","title":"Myeloid chemokine production and migration","description":"This cluster shows enrichment for chemokine-related and migratory processes (positive regulation of CXCL1 production; cell migration) and GPCR signaling, which together point to chemokine-driven immune cell trafficking, particularly in myeloid cells. While several terms are unrelated or obscure (telomeric localization, transcription regulation, thermoception), the dominant theme is immune signaling and migration mediated by GPCRs.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0070198","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0016477","count":4},{"id":"GO:2000340","count":4}]},{"hash":"1480651591401153203","title":"DNA Damage Response and Cell Cycle","description":"The proteins appear enriched for processes tied to genome maintenance and cell cycle control: cell division, positive regulation of DNA repair, meiotic recombination, and stress signaling via the JNK cascade, plus related protein turnover through the SCF-ubiquitin\u2013proteasome system. While there are a few outliers (peroxisome import, embryonic development, chromatin-related regulation), the dominant theme centers on coordinating DNA repair/recombination with cell cycle progression and stress responses.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007254","count":1},{"id":"GO:0045141","count":1},{"id":"GO:0016562","count":1},{"id":"GO:0042276","count":1}]},{"hash":"1723620582669975025","title":"Cell proliferation and metabolism","description":"This cluster shows strong signals for DNA replication and cell division, plus protein oligomerization and hexamerization, which together point to growth and assembly of protein complexes. Coupled with ATP metabolic processes and pyruvate biosynthesis, the terms suggest active energy production to support proliferation. While some terms (e.g., competence for transformation, SNARE disassembly, mRNA export) are diverse, the dominant themes revolve around growth, replication, and metabolism. Confidence: Medium","confidence":"","size":18,"edges":143,"triangles":670,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0042866","count":5},{"id":"GO:0030420","count":5}]},{"hash":"2140234239226760170","title":"Developmental differentiation and cell-cycle regulation","description":"This cluster shows enrichment for developmental and differentiation processes (multicellular development, myoblast fusion, keratinocyte differentiation, visual perception) along with cell-cycle and genome maintenance activities (G2/M transition, DNA repair, transcription, apoptosis), suggesting a theme of developmental differentiation coordinated with proliferation and genome integrity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0000086","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0007520","count":2}]},{"hash":"2143672480240190799","title":"Secretory trafficking and ECM remodeling","description":"This cluster centers on ER-to-Golgi vesicle transport and exocytosis (secretory pathway) alongside hyaluronan metabolism and metallopeptidase activity, pointing to extracellular matrix remodeling and cell migration. Signals like HGF response and fibroblast migration support a context of tissue remodeling and movement, while DNA-related terms are less defining. Overall, the strongest theme is secretion/trafficking coupled with ECM remodeling.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0048240","count":2},{"id":"GO:0030212","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0010763","count":2}]},{"hash":"2110757320578577935","title":"Retroviral entry, genome integration, and proviral latency","description":"The prominent GO terms describe steps of a retroviral life cycle: entry into host cells, penetration into the nucleus, reverse transcription (RNA-templated DNA synthesis), DNA replication and recombination, integration into host DNA, and establishment of proviral latency. The inclusion of host apoptosis activation and suppression of siRNA processing suggests viral strategies to manipulate host defenses.","confidence":"High","size":18,"edges":57,"triangles":70,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0075732","count":3}]},{"hash":"2220212244397718357","title":"Neurodevelopmental transcription and signaling","description":"Top GO terms cluster around neural development (neural tube closure, forebrain development) and multicellular development, with strong links to transcription (DNA-templated transcription, mRNA transport) and signaling regulation (kinase activity, GTPase activity). Together these suggest proteins coordinating neural development through transcriptional control and signal transduction, with cell cycle and hypoxia responses reflecting proliferative developmental contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0051028","count":6}]},{"hash":"491801494516140230","title":"Neuronal signaling and muscle regulation","description":"The top GO terms center on neural processes (short-term memory, long-term synaptic potentiation) and muscle/heart regulation (regulation of heart rate, muscle relaxation, calcium-channel activity), suggesting a set of proteins involved in neural signaling and muscular physiology. Some terms (e.g., transcriptional regulation and specific developmental cues) are broader or incidental, but the dominant pattern points to neural signaling and muscle function.","confidence":"Medium","size":18,"edges":58,"triangles":45,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035191","count":6},{"id":"GO:0007614","count":6},{"id":"GO:2000678","count":6},{"id":"GO:0060315","count":6},{"id":"GO:1901077","count":6}]},{"hash":"163501832078416140","title":"ER-Golgi and Endosome-to-Golgi Vesicle Trafficking","description":"The terms point to vesicle trafficking routes to the Golgi (COPII loading, ER-to-Golgi transport, and endosome-to-Golgi transport) and related Rab signaling, indicating proteins involved in intracellular membrane trafficking toward the Golgi rather than other cellular processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090110","count":2},{"id":"GO:0071955","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0034499","count":2},{"id":"GO:0046726","count":2}]},{"hash":"973445511435370685","title":"Unknown","description":"The top GO terms are a scattered mix (cell migration, GPCR signaling, transcriptional regulation, mRNA stability, chromosomal localization, apoptosis, adipocyte differentiation), with several obsolete terms and no shared precise function or pathway linking all proteins. There are no edges or cohesive theme to justify a more specific label.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":9},{"id":"GO:0007205","count":9},{"id":"GO:2001275","count":9},{"id":"GO:0070198","count":8},{"id":"GO:0000083","count":8}]},{"hash":"181483494707954988","title":"TLR-driven antiviral macrophage activation","description":"The GO terms cluster around toll-like receptor signaling (TLR3/4/9), macrophage activation, dsRNA response, interferon-beta production, and antiviral defense, indicating a coherent innate immune response to viral components mediated by TLRs and macrophages.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034162","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0032741","count":3},{"id":"GO:0034142","count":3},{"id":"GO:0006954","count":3}]},{"hash":"919110074976829093","title":"Chromatin Regulation and Development","description":"The cluster\u2019s top GO terms are dominated by chromatin-related processes (heterochromatin formation, chromatin assembly, histone regulation), suggesting a core function in chromatin dynamics. The presence of terms tied to growth and differentiation (multicellular growth, osteoblast differentiation, cardiac morphogenesis) and innate immune responses indicates that chromatin regulators may influence developmental and immune pathways, justifying a label that centers on chromatin regulation with developmental implications.","confidence":"Medium","size":18,"edges":64,"triangles":108,"max_degree":15,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030466","count":9},{"id":"GO:0033128","count":5},{"id":"GO:0006335","count":5},{"id":"GO:0090230","count":5},{"id":"GO:0035264","count":5}]},{"hash":"2062861099109641272","title":"Unknown","description":"These terms span diverse processes\u2014from heme catabolism and iron import to mRNA splicing and various developmental pathways (bone, neural crest, embryonic skeletal) plus plant-specific pollen tube guidance. There isn\u2019t a single coherent function linking these terms, so there\u2019s no reliable cluster label beyond Unknown.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042167","count":1},{"id":"GO:0042984","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0033212","count":1},{"id":"GO:0000398","count":1}]},{"hash":"128330710219600003","title":"Gene expression and chromatin regulation","description":"The cluster centers on core gene expression processes (DNA-templated transcription, ribosome biogenesis) and chromatin modifications (histone acetylation/methylation) with cell-cycle-related terms (mitotic sister chromatid cohesion). The Arp2/3 actin nucleation term hints at cytoskeletal involvement that can accompany transcription and mitosis, supporting a cohesive theme of gene expression control and cell-cycle regulation.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0042273","count":7},{"id":"GO:0034314","count":7},{"id":"GO:0043981","count":7},{"id":"GO:0051568","count":7}]},{"hash":"414691588638182640","title":"Vesicle exocytosis and membrane transport","description":"The GO terms cluster around calcium-dependent exocytosis and neurotransmitter loading into synaptic vesicles, plus broad membrane transport activities for ions (Na+, K+) and various metabolites (fucose, nitrate, vitamins, hydroxyphenylacetate). This suggests a cohesive function in vesicle-related secretion and general membrane transport, rather than a single metabolic pathway.","confidence":"High","size":18,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045956","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0015706","count":2}]},{"hash":"275085430766814641","title":"ERAD and ubiquitin-dependent protein degradation","description":"The cluster\u2019s top GO terms are centered on ubiquitin-dependent protein catabolic processes and ER-associated degradation (ERAD), including positive/negative regulation of ERAD pathways and ER stress\u2013related apoptosis. While there are a few terms related to immune signaling, the dominant pattern is protein quality control via ubiquitin tagging and ERAD, extending to ER stress\u2013induced apoptotic signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070059","count":1},{"id":"GO:0006517","count":1}]},{"hash":"1941491829856328716","title":"Nutrient-stress growth and transport","description":"The cluster centers on responses to nutrient limitation and associated growth/transport processes, as shown by terms for pseudohyphal/invasive growth under nutrient limitation, ammonium transport across membranes, and nitrogen utilization. A smaller set of terms relates to ribosome maturation and innate immune defense, which may reflect shared cellular regulation but do not override the predominant theme of adaptation to nutrient availability. Overall, the proteins appear linked by a common theme of responding to nutrient status and adjusting growth and transport accordingly.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030490","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0007124","count":1}]},{"hash":"1736996573618191697","title":"Nuclear transcription and cell cycle regulators","description":"Most top GO terms point to nuclear processes\u2014chromosome telomere localization, transcription regulation, mRNA stability, and spindle assembly\u2014indicating a core theme of gene expression control and mitotic regulation. Some terms (vasopressin secretion, SA node communication, chemokine production) seem peripheral or reflect broader regulatory roles of these proteins.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":11},{"id":"GO:0000083","count":11},{"id":"GO:2000340","count":11},{"id":"GO:0043488","count":11},{"id":"GO:1903444","count":11}]},{"hash":"1625832410754573044","title":"Mitotic cell cycle and chromosome dynamics","description":"This cluster is dominated by GO terms linked to cell cycle control (mitotic cell cycle, cell division), chromosome-associated processes (protein localization to chromosome, telomeric region; DNA-templated transcription), and regulatory mechanisms (SCF-dependent proteasomal degradation, peptidyl-serine dephosphorylation), suggesting a cohesive theme of cell cycle progression and chromosome maintenance, with a minor outlier related to chemokine production.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010845","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1227841244058413256","title":"Mitochondrial Translation and Respiratory Assembly","description":"This cluster is dominated by mitochondrial and translation-related processes: multiple proteins linked to translation and its negative regulation, plus mitochondrion autophagy, the electron transport chain, and assembly of Complex I. Although there are some development terms, the strongest and most consistent signals describe mitochondrial protein synthesis and biogenesis of the respiratory chain, suggesting a mitochondria-centered functional theme.","confidence":"High","size":17,"edges":132,"triangles":624,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0017148","count":2},{"id":"GO:0000422","count":1},{"id":"GO:0051591","count":1}]},{"hash":"1620602331323134535","title":"Tissue remodeling and morphogenesis","description":"The terms cluster around extracellular matrix and bone remodeling (collagen catabolic process, bone resorption, intramembranous ossification) and developmental morphogenesis (epithelial tube branching in lung morphogenesis, Wnt signaling-related localization). Peptide catabolism (bradykinin and neuropeptides) suggests proteolytic turnover of signaling molecules, all pointing to general tissue remodeling and developmental morphogenesis rather than a single specific pathway.","confidence":"Medium","size":17,"edges":48,"triangles":86,"max_degree":11,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0010815","count":10},{"id":"GO:0001957","count":6},{"id":"GO:0001913","count":6},{"id":"GO:0030574","count":6},{"id":"GO:0050790","count":6}]},{"hash":"1730276083076799823","title":"Mitotic Division and COPII Vesicle Trafficking","description":"This cluster is dominated by mitosis-related terms (mitotic cell cycle, cell division, mitotic spindle assembly) alongside vesicle trafficking between the Golgi and ER (COPII budding, retrograde Golgi-ER transport). The pairing suggests a coordinated role for cell proliferation with secretory pathway remodeling, possibly in developing tissues where growth and polarity are also involved.","confidence":"High","size":17,"edges":9,"triangles":2,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0090114","count":7},{"id":"GO:0008283","count":7},{"id":"GO:0090307","count":7}]},{"hash":"1123720813402556125","title":"Neural Development and DNA Maintenance","description":"The cluster shows a clear emphasis on neural development terms (neural tube closure, forebrain development, multicellular organism development) alongside core DNA metabolism processes (mitotic cell cycle, DNA replication, DNA transcription, DNA repair). Additional signals related to dopamine response and ER-stress\u2013linked apoptosis hint at neural-context signaling and stress responses. Taken together, these proteins likely contribute to neural development with concurrent cell proliferation and genome maintenance.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0001843","count":4},{"id":"GO:0006281","count":4}]},{"hash":"1568354219540382103","title":"Redox-regulated proteostasis under oxidative/ER stress","description":"The cluster centers on redox-related processes (deglutathionylation, protein repair) and stress responses (cellular oxidative stress, ER stress), suggesting a theme of maintaining protein function under redox and ER stress conditions, with auxiliary signaling and transcriptional regulation components.","confidence":"Medium","size":17,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":2},{"id":"GO:0080058","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0006662","count":1}]},{"hash":"836088168116394380","title":"Synaptic assembly and vesicle clustering","description":"The top terms are dominated by synapse-related processes, especially neuroligin clustering in postsynaptic membranes and regulation of synaptic vesicle clustering, indicating a primary theme of synaptic organization. Other terms are more peripheral (cell cycle, ubiquitination, vascular or cochlear processes), but the central signal supports a synaptic-focused cluster label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097118","count":2},{"id":"GO:2000809","count":2},{"id":"GO:0072307","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0035522","count":2}]},{"hash":"567875622098562987","title":"Ubiquitination in development","description":"The protein set shows a strong signal for ubiquitination-related processes (protein ubiquitination, polyubiquitination, and deubiquitination) alongside developmental themes (brain and skin development, pigmentation). This suggests a shared function where ubiquitin-mediated regulation influences developmental pathways. ER-Golgi trafficking adds a related layer of cellular regulation, but the recurring ubiquitin-related terms most consistently tie the cluster together.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0010745","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1446152104287341255","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around translation and ribosome biogenesis (cytoplasmic translation, ribosomal subunit biogenesis), pointing to proteins involved in ribosome assembly and protein synthesis; a few ancillary terms seem less connected and likely represent noise.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0090305","count":2}]},{"hash":"1226695085447806138","title":"Vacuolar amino acid import","description":"The top GO terms cluster around transmembrane import of various amino acids (arginine, lysine, histidine, serine, glutamine, asparagine, glutamate, etc.) into the vacuole, with a related term on cellular response to nutrient/ion conditions, suggesting a shared function in vacuolar amino acid transport and ion/nutrient homeostasis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090518","count":2},{"id":"GO:2000487","count":2},{"id":"GO:0089708","count":2},{"id":"GO:0090517","count":2},{"id":"GO:0051365","count":2}]},{"hash":"1984885835683744598","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045190","count":1},{"id":"GO:0006289","count":1},{"id":"GO:0071140","count":1},{"id":"GO:0006295","count":1},{"id":"GO:0006286","count":1}]},{"hash":"54345212791700565","title":"Cytoskeletal Dynamics and Spindle Organization","description":"The top GO terms cluster around microtubule cytoskeleton organization, spindle orientation during mitosis and meiosis, chromosome alignment, and related motor/membrane transport activities, plus actomyosin ring assembly and nuclear migration. This points to a cohesive group of proteins governing cytoskeletal dynamics essential for cell division, cell polarization, and morphogenetic movements, with some context-specific roles in stem cell maintenance and tissue invasion.","confidence":"High","size":17,"edges":39,"triangles":27,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000915","count":15},{"id":"GO:0036334","count":15},{"id":"GO:0007080","count":15},{"id":"GO:0030951","count":15},{"id":"GO:0000743","count":15}]},{"hash":"545605731839194830","title":"Unknown","description":"The GO terms include male meiosis I, embryonic development, mRNA splicing, protein ubiquitination, and several signaling terms with no single unifying function, so there is no coherent theme to name the cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007141","count":2},{"id":"GO:0001700","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0000350","count":1},{"id":"GO:0016567","count":1}]},{"hash":"1370757690298734048","title":"Unknown","description":"The GO terms span diverse processes (bud growth, sperm binding, VEGF signaling, organelle inheritance, brush border assembly) with no clear shared pathway or coherent biological theme, and there are no edges linking the proteins. So a specific functional label cannot be inferred.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":2},{"id":"GO:0060474","count":2},{"id":"GO:1902405","count":2},{"id":"GO:0045033","count":2},{"id":"GO:0051661","count":2}]},{"hash":"88859818056985011","title":"Neuronal development with innate immune signaling","description":"The cluster includes neuron development terms (dendrite morphogenesis, hippocampus development, axon extension, neuron apoptotic regulation) alongside immune-related terms (innate immune response, mast cell degranulation) and signaling pathways (ERK1/2 cascade, focal adhesion assembly), suggesting a theme of neural development influenced by innate immune and signaling processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0070374","count":2}]},{"hash":"2128572481953582401","title":"Developmental signaling and actin dynamics","description":"The cluster is enriched in developmental terms (skin development, multicellular organism development) and contains multiple entries related to actin cytoskeleton regulation (Arp2/3-mediated nucleation; regulation of GTPase activity; kinase signaling via serine/threonine phosphorylation and autophosphorylation). This combination suggests proteins that coordinate developmental signaling with cytoskeletal remodeling and related regulatory processes, rather than a single, narrow pathway.","confidence":"Medium","size":17,"edges":21,"triangles":26,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0007275","count":5},{"id":"GO:2000601","count":4},{"id":"GO:0071456","count":4}]},{"hash":"265251215330710376","title":"Mitosis and Cilium-Associated Trafficking","description":"The cluster shows strong emphasis on mitotic processes (mitotic cell cycle; chromosome passenger complex localization to kinetochore) along with ciliogenesis (cilium assembly) and vesicle/endosome trafficking (endosome size regulation; receptor recycling). Additional terms involving Hippo signaling and GTPase activity suggest broader signaling regulation linked to centrosome/cilium biology and membrane trafficking, with visual perception likely tying to ciliary sensory roles. Overall, these terms converge on a theme of centrosome/cilium functions coordinating cell division with vesicular trafficking and signaling.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":16},{"id":"GO:0006547","count":16},{"id":"GO:1905608","count":16},{"id":"GO:0051036","count":16},{"id":"GO:0007601","count":16}]},{"hash":"2259473040895815585","title":"Developmental Signaling and Migration","description":"The terms converge on development (skin development, multicellular organism development) with associated cell movement and signaling (GPCR signaling, chemokine production), suggesting a cluster focused on developmental signaling and cellular migration rather than a single enzymatic activity.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0010745","count":6},{"id":"GO:0043588","count":5},{"id":"GO:0007275","count":5}]},{"hash":"244110766990044165","title":"Myeloid Activation and Chemokine Regulation","description":"The cluster includes terms tied to myeloid cell processes (foam cell differentiation, myeloid apoptosis), cell migration, and positive regulation of chemokine production (CXCL1), along with mRNA processing and regulation, and GPCR signaling\u2014together suggesting roles in macrophage/monocyte activation, movement, and immune signaling, with post-transcriptional gene expression control as a supporting theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0006397","count":8},{"id":"GO:0010745","count":8},{"id":"GO:0070198","count":7},{"id":"GO:0000083","count":7}]},{"hash":"1441061973154267068","title":"Dopaminergic Signaling and Neural Response","description":"This cluster is driven by GO terms related to dopamine signaling and neural activity (cellular response to dopamine; response to cocaine; negative regulation of excitatory postsynaptic potential), suggesting a focus on neuronal signaling and neuromodulation. Other terms point to metabolic and stress responses (glucose metabolic process; cellular response to amino acid starvation; response to exogenous dsRNA) and development (placenta development), indicating some functional diversity. Overall, the strongest signal appears to be neural signaling and dopaminergic modulation, with some ancillary stress/metabolism signals. Confidence: Medium","confidence":"","size":16,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903351","count":4},{"id":"GO:0034198","count":4},{"id":"GO:0006935","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0033160","count":3}]},{"hash":"1086128374799272847","title":"Chloroplast and mitochondrial energy metabolism","description":"The top GO terms are dominated by photosynthesis and various electron transport chain and ATP synthesis processes in chloroplasts and mitochondria, indicating a cohesive theme of organelle-based energy production. A few terms like translation and interferon regulation appear less central, but do not outweigh the main energy-metabolism signal. ","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0032480","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1902600","count":1},{"id":"GO:0015979","count":1}]},{"hash":"1921213505206366020","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related GO terms such as substantia nigra development, Schwann cell development, excitatory postsynaptic potential, and response to cocaine, suggesting a neural development and synaptic signaling theme. However, there are also cell cycle and transcription terms (DNA replication, G1/S transition, kinetochore localization) that do not fit neatly with neural functions, indicating a mixed annotation set and limiting full cohesion of the theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021762","count":7},{"id":"GO:0051321","count":6},{"id":"GO:0042220","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0006260","count":6}]},{"hash":"1798758482447415440","title":"Glutathione-Dependent Redox Detoxification","description":"This cluster is dominated by GO terms for cellular oxidant detoxification, redox homeostasis, glutathione metabolism, and oxidative stress response, indicating a cohesive antioxidant defense role. While a few terms (such as neural crest cell migration in heart formation) appear development-specific and less connected to redox detox, the prevailing theme centers on detoxification and maintenance of redox balance, supported by deglutathionylation and toxin catabolic processes.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":12},{"id":"GO:0045454","count":9},{"id":"GO:0009407","count":6},{"id":"GO:0006749","count":6},{"id":"GO:0009263","count":5}]},{"hash":"408052688249175059","title":"Cell Cycle, DNA Repair, and Proteostasis","description":"The term set centers on essential cellular housekeeping during division and development: cell cycle and division, DNA repair, and protein turnover via the ubiquitin-proteasome system and proteasome assembly. While diverse (including embryonic development and cytoskeletal organization), these processes collectively point to genome maintenance and protein quality control during proliferation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006311","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000184","count":2},{"id":"GO:0097284","count":2}]},{"hash":"635024901739717206","title":"Unknown","description":"The set of GO terms is highly heterogeneous, spanning transcription, translation, cell-cycle regulation, antiviral response, energy metabolism, photosynthesis, and various developmental processes. There isn't a single coherent function tying these terms together, so a concise, representative label cannot be assigned.","confidence":"","size":16,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0045787","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0009615","count":1}]},{"hash":"1497387134147669626","title":"Bacterial stress responses and envelope processes","description":"The cluster includes GO terms for mercury ion response, antibiotic response, DNA repair (interstrand cross-link repair), membrane dynamics (membrane hyperpolarization, phospholipid translocation), pH regulation, and LPS precursor biosynthesis (ADP-L-glycero-beta-D-manno-heptose), suggesting a broad stress-adaptation theme centered on the cell envelope and genome maintenance rather than a single specific function.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046689","count":2},{"id":"GO:0036297","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0051290","count":2}]},{"hash":"557137884596098634","title":"mRNA splicing, export, and translation initiation","description":"These proteins cluster around post-transcriptional regulation of gene expression: spliceosome-mediated splicing, mRNA export, formation of translation preinitiation complexes, and regulation of mRNA stability, with ties to ncRNA-mediated silencing and stress responses. This combination points to a coherent theme of mRNA processing and the control of translation, justifying the label.","confidence":"High","size":16,"edges":112,"triangles":460,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0006378","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0006406","count":7}]},{"hash":"995934523781737419","title":"Cardiac electrophysiology and ion transport","description":"These proteins show GO terms centered on heart development and electrical activity (left ventricular morphogenesis; regulation of SA node and atrial cardiomyocyte action potentials) together with ion handling (calcium release from the sarcoplasmic reticulum; sodium and potassium ion transport). While there are a few broader terms present (skin development, general development, caffeine response), the strongest theme is cardiac electrophysiology and ion homeostasis. ","confidence":"High","size":16,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071313","count":2},{"id":"GO:0003220","count":2},{"id":"GO:0097623","count":2},{"id":"GO:0014808","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1955379051841554807","title":"Unknown","description":"The GO terms span a wide and disparate set of processes (cilia-dependent motility, bile acid transport, plant immune response, mitochondrial assembly, amino acid and calcium export, endocrine development, cartilage morphogenesis, left-right patterning, and EMT). There isn't a single unifying function or pathway that clearly links these proteins, so a coherent, specific label cannot be assigned beyond Unknown.","confidence":"","size":16,"edges":50,"triangles":30,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2000155","count":1},{"id":"GO:0015721","count":1},{"id":"GO:0009626","count":1},{"id":"GO:0033108","count":1},{"id":"GO:0032973","count":1}]},{"hash":"1641971124710225669","title":"Cell signaling and localization regulators","description":"The top GO terms cluster around signaling and localization: GPCR-related signaling, phosphatidylinositol signaling, regulation of GTPase activity, and voltage-gated calcium channel regulation, plus protein localization to cilium and telomeric chromosome regions. While there are some diverse terms (mitotic cycle, adipogenesis, sporulation), the shared theme is proteins implicated in signaling modulation and intracellular localization rather than a single pathway, supporting a label focused on signaling and localization roles.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1196578334670121064","title":"Cell Cycle and Genome Maintenance","description":"Most frequent GO terms point to nuclear processes tied to proliferation and genome maintenance\u2014DNA replication, mitotic cell cycle, cell division, and nucleotide-excision repair\u2014along with ribosome biogenesis. This suggests proteins in this cluster participate in cell growth and genome upkeep. A few terms (brain development, isotype switching, and ERAD) are peripheral outliers, but do not override the main theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0030433","count":2}]},{"hash":"689104244190772332","title":"Vacuolar transport and proton gradient","description":"The terms cluster around vacuolar processes (vacuole organization, protein targeting to vacuole, vacuolar acidification) and proton/ion energetics (proton transmembrane transport, proton motive force-driven ATP synthesis, sodium and copper ion homeostasis). Some terms like heart development and glucocorticoid response may be incidental, but the dominant theme is vacuolar transport coupled to proton/energy dynamics. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0007033","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0015991","count":2}]},{"hash":"46865439099366091","title":"Antibiotic biosynthesis and sulfur metabolism","description":"The cluster shows explicit enrichment for sulfur amino acid metabolism (hydrogen sulfide biosynthesis, transsulfuration, serine catabolism) alongside antibiotic biosynthetic processes and antibiotic response, suggesting a link between sulfur metabolism and secondary metabolite production. It also features core metabolic pathways (glycolysis, TCA cycle) and lipid biosynthesis, indicating a broader metabolic program that supports antibiotic biosynthesis. ","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":4},{"id":"GO:0019343","count":4},{"id":"GO:0019346","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0006565","count":4}]},{"hash":"2079942380973146909","title":"Fatty acid oxidation and organ development","description":"Based on the top GO terms, the cluster is centered on lipid metabolism, especially fatty acid catabolic processes and carnitine-dependent oxidation, with supporting terms for heart and liver development and cardiac muscle differentiation. While a few terms reference unusual pathways, the dominant signal points to fatty acid energy metabolism linked to cardiac and hepatic development, justifying a label around fatty acid oxidation in organ development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0019254","count":3},{"id":"GO:0033540","count":3},{"id":"GO:0006574","count":3},{"id":"GO:1904070","count":3}]},{"hash":"855678330315130295","title":"Nuclear transport and cell cycle control","description":"The top GO terms cluster around nuclear processes: import of NLS-bearing proteins, mRNA transport, DNA replication-associated chromatin assembly, and meiosis-related nuclear divisions, indicating a focus on nuclear trafficking and cell cycle regulation. Additional terms for TORC1 signaling, phosphatidylinositol biosynthesis, ceramide metabolism, and amino acid response suggest growth and nutrient signaling that coordinate cell growth with division, reinforcing a theme of nuclear-centric regulation in the context of cellular growth. Overall, the common thread is nuclear transport coupled with cell cycle control and growth signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031030","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0048240","count":2},{"id":"GO:0006335","count":2}]},{"hash":"2016405654062048706","title":"Embryonic development and cell-cycle regulation","description":"The cluster groups proteins involved in diverse developmental processes (heart development, axonogenesis, Schwann cell development, myoblast fusion) alongside cell-cycle regulation (G2/M transition, mitotic cell cycle) and signaling, suggesting a coherent theme of developmental programs across tissues tied to cell-cycle control and associated signaling pathways.","confidence":"Medium","size":15,"edges":103,"triangles":430,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":15},{"id":"GO:0007520","count":15},{"id":"GO:0010800","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0043065","count":15}]},{"hash":"320503022344817960","title":"Neuronal development and transcriptional regulation","description":"The cluster is dominated by neural development terms (neuron migration, hippocampus development) alongside transcriptional regulation terms (negative regulation of transcription by RNA Pol II, antisense RNA transcription), suggesting a program coordinating neural development with gene expression control. A few items (e.g., Sertoli cell barrier) are less central but do not override the main theme.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001764","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0030307","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0051726","count":1}]},{"hash":"286585051170902033","title":"Membrane Transport","description":"Most of the enriched GO terms describe transmembrane transport of ions and metabolites (potassium, sodium, nitrate, 4-hydroxyphenylacetate) and related vesicular loading, suggesting these proteins function mainly in membrane transport. A couple terms (nuclear receptor signaling, some metabolism) appear less connected, but the dominant signal is transport across membranes.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042921","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0042891","count":2}]},{"hash":"861035190029915606","title":"Unknown","description":"The top GO terms span ribosome biogenesis (SSU-rRNA maturation), vesicle-mediated transport, and a range of developmental processes (embryonic placenta development, left-right pattern formation, endocardial cushion EMT, trophoblast and pancreatic cell development) plus kinetochore assembly. This mix suggests no single coherent function or pathway tying the proteins together, making a concise, representative label infeasible. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0016192","count":2},{"id":"GO:0035270","count":1},{"id":"GO:0060536","count":1},{"id":"GO:0060972","count":1}]},{"hash":"38812243749956000","title":"Genome Maintenance and Sensory Development","description":"The top GO terms reveal genome maintenance activities (DNA replication, nucleotide-excision repair, double-strand break repair by homologous recombination) alongside development of sensory structures (Purkinje cell layer, inner ear receptor cells, retinal rods, middle ear morphogenesis). This suggests a cluster of proteins involved in maintaining genome integrity while also participating in sensory organ development, hence a combined label reflecting both themes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0043150","count":1},{"id":"GO:1903460","count":1},{"id":"GO:0021680","count":1},{"id":"GO:0060119","count":1}]},{"hash":"1367015306677268221","title":"DNA Damage Repair and Recombination","description":"This cluster is characterized by DNA damage repair and genome maintenance processes (base-excision repair, pyrimidine dimer repair, NHEJ gap filling), DNA recombination, and damage-induced apoptosis, reflecting a cohesive DNA damage response module.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0006310","count":3},{"id":"GO:0071707","count":2},{"id":"GO:0006288","count":2}]},{"hash":"1352566892078345450","title":"Meiosis and Genome Maintenance","description":"This cluster is enriched for meiotic chromosome dynamics (meiotic telomere clustering, reciprocal meiotic recombination), DNA repair regulation, and cell cycle control (G2/M transition), plus SCF-mediated protein turnover. Together these terms suggest a module coordinating meiosis, genome stability, and chromatin remodeling, with a few less-direct terms (JNK cascade, peroxisome import) that may reflect broader signaling or cargo management roles.","confidence":"Medium","size":15,"edges":101,"triangles":407,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007254","count":10},{"id":"GO:0045141","count":10},{"id":"GO:0016562","count":10},{"id":"GO:0042276","count":10},{"id":"GO:0001701","count":10}]},{"hash":"836465148724167565","title":"Unknown","description":"The GO terms are highly heterogeneous, covering core metabolism (gluconeogenesis, glycolysis, fatty acid biosynthesis, starch catabolic), vitamin B12 biosynthesis, and diverse developmental or regulatory processes (intestinal epithelial development, pollen hydration, mitophagy regulation, cardiac apoptosis). Because there is no consistent, unifying function linking the proteins, this cluster lacks a single interpretable theme.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0006096","count":1},{"id":"GO:0060576","count":1},{"id":"GO:1901525","count":1}]},{"hash":"862557185317935306","title":"RNA processing and transcription regulation","description":"The top GO terms cluster around RNA maturation and gene expression control: rRNA modification, RNA (guanine-N7)-methylation, translation, and various aspects of transcription elongation and regulation by RNA polymerases II and I, with related chromatin modifications. This combination points to a coherent module of RNA processing linked to transcriptional regulation, despite a few outliers.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000154","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0017000","count":2},{"id":"GO:2001173","count":2}]},{"hash":"2127307901647698172","title":"Mitotic Chromosome Segregation Machinery","description":"The cluster is dominated by GO terms tied to mitosis, including mitotic cell cycle, mitotic metaphase chromosome alignment, mitotic sister chromatid segregation, and mitotic sister chromatid biorientation, pointing to a cohesive set of proteins involved in chromosome segregation during cell division. Other terms such as endosome organization, phosphatidylinositol-mediated signaling, and ubiquitin-dependent protein catabolic process likely reflect regulatory and trafficking roles that accompany mitosis, but the strongest signal is mitotic chromosome segregation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0007032","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0032120","count":2}]},{"hash":"1480304613685826295","title":"Endosomal Transport and GTPase Regulation","description":"The cluster is enriched for endosomal trafficking terms: early endosome to late endosome, endosome to lysosome, endosome to Golgi, and vacuolar targeting, along with regulation of GTPase activity and related phosphorylation. While a few terms touch on ciliogenesis and cell cycle, the dominant theme centers on intracellular vesicle transport and GTPase signaling, suggesting roles in endosome maturation and organelle-to-organelle routing.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1474601800625405407","title":"Vacuolar amino acid transport","description":"Top GO terms cluster around transmembrane import of multiple amino acids into the vacuole (arginine, histidine, lysine, serine, glutamine, asparagine), with supportive terms on cellular responses to ion starvation. This suggests a group of vacuolar amino acid transporters, possibly with broader ion transport roles in vacuolar homeostasis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090518","count":1},{"id":"GO:2000487","count":1},{"id":"GO:0089708","count":1},{"id":"GO:0090517","count":1},{"id":"GO:0051365","count":1}]},{"hash":"1031935068399406737","title":"NOD2-NF-kB Innate Immune Signaling","description":"The top terms center on NOD2 signaling and NF-kappaB regulation, with associated inflammatory outputs such as chemokine production, myeloid cell apoptosis, and cell migration, suggesting this cluster reflects innate immune sensing and regulation of inflammatory gene expression rather than cell cycle or metabolism.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0070198","count":3},{"id":"GO:0000083","count":3},{"id":"GO:0016477","count":3}]},{"hash":"1301145452204914401","title":"Neural Development and Signaling","description":"This cluster centers on neural development and related signaling, with terms like multicellular organism development, cerebral cortex development, and neuron maturation regulation. It also includes supportive signaling and cellular response terms (cAMP signaling, apoptotic processes, and responses to toxins) that align with developmental regulation. Some terms (pain perception, sperm capacitation) are broader or outliers, but the dominant theme is neural development and associated signaling pathways.","confidence":"Medium","size":14,"edges":8,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0048240","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0009636","count":4}]},{"hash":"1871584431207227692","title":"Translation Initiation & Viral Translation","description":"This cluster is dominated by GO terms related to translation initiation and control of protein synthesis, including formation of the translation preinitiation complex, translation reinitiation, regulation of translational initiation, and IRES-dependent viral translational initiation, with additional context from mRNA export and rRNA decay terms that are adjacent to RNA processing. The shared theme is translation initiation and viral translation mechanisms.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071712","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0070651","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0001731","count":2}]},{"hash":"229490005262593041","title":"DNA replication and transcription with Fe-S and stress regulation","description":"The cluster centers on nuclear processes (DNA-templated transcription, DNA replication, cell division) and includes iron-sulfur cluster assembly terms, suggesting Fe-S\u2013dependent enzymes in replication/repair, along with proteins involved in unfolded-protein responses and stress regulation. Some terms (e.g., obsolete or stem cell differentiation-related) are less connected but do not override the core theme.","confidence":"Medium","size":14,"edges":61,"triangles":162,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0070389","count":2},{"id":"GO:0006880","count":2}]},{"hash":"1422429996873723846","title":"Post-transcriptional RNA processing and translation control","description":"This cluster centers on post-transcriptional RNA processing and translation control. Top terms span mRNA splicing regulation (alternative and spliceosome-mediated), polyadenylation and tail length control, mRNA stability, and translation initiation (including IRES-dependent initiation and reinitiation), suggesting a coherent module coordinating RNA maturation with translation outcomes.","confidence":"High","size":14,"edges":53,"triangles":81,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":9},{"id":"GO:0006378","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0002188","count":6},{"id":"GO:0060211","count":6}]},{"hash":"631258004097697893","title":"Glycogen metabolism and vesicular transport","description":"Top GO terms suggest a core of glycogen metabolic processes and ER-to-Golgi vesicle transport, pointing to roles in energy storage/usage and intracellular trafficking. Other terms like development or xenobiotic response may reflect broader pleiotropy or annotation noise, but the dominant signal centers on glycogen metabolism and vesicular transport.","confidence":"Medium","size":14,"edges":14,"triangles":6,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0021762","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0042220","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0005979","count":4}]},{"hash":"999904418745632907","title":"Neurodevelopment and synaptic plasticity","description":"The GO terms cluster around neural development and signaling: Schwann cell development and long-term potentiation point to nervous system maturation and synaptic plasticity, while the presence of response to cocaine supports neural signaling. Additional terms like mitotic cell cycle, transcription, apoptosis, and cholesterol biosynthesis may reflect general cellular regulation common to neural tissues. Overall, the strongest coherent theme is nervous system development and synaptic function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0006695","count":3}]},{"hash":"716456686760555279","title":"Chloroplast pigment and quinone biosynthesis","description":"The cluster\u2019s top GO terms cluster around biosynthesis of chlorophyll and various quinones (phylloquinone, plastoquinone, menaquinone, ubiquinone) as well as heme O, pointing to production of photosynthetic pigments and key electron carriers. This suggests the proteins cooperate in assembling pigments and cofactors essential for electron transport in photosynthetic or plastid-related pathways, with a couple of outlier terms likely representing background annotations.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0048034","count":1},{"id":"GO:0042372","count":1},{"id":"GO:0032194","count":1},{"id":"GO:0042371","count":1}]},{"hash":"631486164929999534","title":"Amino acid metabolism and NADPH generation","description":"The top GO terms cluster around amino acid biosynthesis and catabolism (valine, tyrosine, alanine) and NADPH regeneration via the pentose phosphate pathway, with supporting catabolic processes like D-galactarate catabolism. This points to a metabolism-focused module with redox balance, though a few terms (sporulation, potassium transport) appear less central. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046392","count":3},{"id":"GO:0006571","count":3},{"id":"GO:0009099","count":3},{"id":"GO:0009097","count":3},{"id":"GO:0006740","count":3}]},{"hash":"1064371733668432749","title":"RNA Modification and Protein Methylation","description":"Top GO terms suggest a core theme of methylation events (N-terminal peptidyl-alanine trimethylation; peptidyl-arginine methylation) alongside RNA maturation processes (tRNA wobble uridine modification; 7-methylguanosine mRNA capping). While a few other terms touch metabolism, the strongest shared functions are protein methylation and RNA processing, justifying a label that captures both aspects.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018012","count":3},{"id":"GO:0046690","count":3},{"id":"GO:0009877","count":3},{"id":"GO:0019919","count":3},{"id":"GO:0002098","count":3}]},{"hash":"60393075320146975","title":"Unknown","description":"The GO terms span many unrelated biosynthetic processes (lipopolysaccharide, ergosterol, galactose, anthocyanin, and ADP-sugars) plus transcription and cytolysis, with no single cohesive function linking them. This heterogeneity makes a specific, confident cluster label infeasible.","confidence":"","size":14,"edges":16,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1901006","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0019835","count":2}]},{"hash":"927307720754990758","title":"Mitochondrial respiration assembly and metal homeostasis","description":"The top terms center on mitochondrial respiratory chain complex IV assembly, redox homeostasis, and metal ion (iron and manganese) homeostasis/transport, suggesting a coordinated role in mitochondrial function and metal-dependent redox balance. Some ER-related terms (protein retention in ER lumen and prolyl hydroxylation) point to broader protein processing and modification that can intersect with redox biology. A couple of outliers (ethylene response and virus membrane fusion) are less central but may reflect general stress signaling. Overall, the dominant theme is mitochondrial assembly with metal ion\u2013dependent redox regulation. ","confidence":"Medium","size":14,"edges":26,"triangles":15,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":3},{"id":"GO:0006621","count":2},{"id":"GO:0018401","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0071281","count":1}]},{"hash":"1114974640317603383","title":"RNA processing and ribosome biogenesis","description":"The cluster shows strong signals for translation, ribosome biogenesis, and rRNA maturation, with supporting hints from mRNA splicing regulation and transcription, suggesting a core theme around RNA processing and ribosome assembly; additional terms reflect broader cellular regulation and stress responses.","confidence":"Medium","size":14,"edges":87,"triangles":318,"max_degree":13,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046330","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0006351","count":3}]},{"hash":"322819940901843805","title":"RNA processing and translation control","description":"The set of terms centers on mRNA metabolism (export, splicing, stability) and translation initiation, including formation of the preinitiation complex and translation reinitiation events. This suggests a cluster of proteins involved in mRNA maturation and the regulation of translation, rather than a single signaling pathway. Note that a couple of terms are obsolete, but the core theme remains RNA processing and translation control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0006406","count":1},{"id":"GO:0007310","count":1},{"id":"GO:1903586","count":1},{"id":"GO:1901407","count":1}]},{"hash":"272560741839374124","title":"Ubiquitin-Proteasome Regulation","description":"This cluster centers on terms about protein turnover and proteolysis control (ubiquitin-dependent protein catabolic process, proteasome assembly, regulation of protein catabolic process, and regulation of catalytic activity). While there are some developmental and physiological terms sprinkled in (chondrocyte development, innervation, smooth muscle contraction, growth-factor signaling regulation), the strongest shared theme is the regulation of protein degradation and proteostasis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050790","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0042176","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0002063","count":1}]},{"hash":"2133259183497713715","title":"Meiosis and Chromosome Segregation","description":"These GO terms cluster around meiotic processes (female meiotic nuclear division, meiotic spindle elongation, meiotic sister chromatid cohesion) and chromatin assembly during DNA replication, suggesting a role in meiotic chromosome dynamics and chromatin organization. Additional terms like TORC1 signaling, ceramide metabolism, and amino acid response are more general cellular signals and do not detract from the core meiosis/chromatin theme. Overall, the label Meiosis and Chromosome Segregation captures the central pattern.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006335","count":2},{"id":"GO:0007143","count":2},{"id":"GO:0050790","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0006672","count":2}]},{"hash":"1266214783547697246","title":"Unknown","description":"The GO terms span trafficking (endocytic recycling, synaptic vesicle endocytosis) and Rab signaling, along with apoptosis, cell-cycle checkpoint signaling, chromatin modification, transcription regulation, and DNA repair, showing no single cohesive function across all proteins; plus, there are no edges connecting members, making a unified label unreliable.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032456","count":1},{"id":"GO:0035745","count":1},{"id":"GO:0048488","count":1},{"id":"GO:0032483","count":1},{"id":"GO:0097194","count":1}]},{"hash":"1403292324996692206","title":"Broad-spectrum transmembrane transporters (sugars and ions)","description":"Top GO terms indicate transmembrane transport across a range of substrates\u2014sugars (galactose, arabinose, fucose), nitrite/nitrate, sodium ions, and xenobiotics\u2014suggesting these proteins function as diverse membrane transporters rather than a single substrate class. This makes a broad transporters label appropriate and representative.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0006004","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0015707","count":2}]},{"hash":"1439325013358040444","title":"Metabolic and Hormone Biosynthesis","description":"The cluster centers on biosynthetic pathways for signaling molecules (prostaglandin, aldosterone, testosterone) and related metabolic/xenobiotic processes, with accompanying responses to nutrients and metals (starvation, vitamin D, copper ion) and liver-related context (hepatocyte differentiation), suggesting a broad metabolic/hormonal theme.","confidence":"Medium","size":14,"edges":29,"triangles":4,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0006808","count":3},{"id":"GO:0009822","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1718170989247743900","title":"TLR signaling and antiviral innate immunity","description":"This cluster centers on Toll-like receptor signaling and related innate immune responses. The top terms include TLR3/4/9 signaling, macrophage activation, inflammatory response, defense against viruses, dsRNA sensing, and interferon-beta production, indicating a cohesive antiviral innate immunity program driven by TLRs.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0032741","count":2},{"id":"GO:0034142","count":2},{"id":"GO:0006954","count":2}]},{"hash":"1620253261786637885","title":"Gene expression and RNA processing","description":"The top GO terms center on transcription (DNA-templated transcription), mRNA export, translation reinitiation, and vesicle transport between ER and Golgi, suggesting a cohesive theme around gene expression regulation and RNA metabolism, despite several entries being marked obsolete which may reflect outdated annotations. ","confidence":"Low","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0060770","count":2}]},{"hash":"1294670138782260954","title":"Unknown","description":"The GO terms span a wide range of unrelated processes (GPCR signaling variant, SA node action potential regulation, telomere localization, cell cycle transcription, migration, chemokine production, meiotic recombination, mRNA stability, myeloid apoptosis, brown fat differentiation) with no clear shared function. The cluster has no edges or coherent connectivity, suggesting a non-functional grouping rather than a true biological module. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0098907","count":5},{"id":"GO:0070198","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0016477","count":4}]},{"hash":"1087751783613319363","title":"Innate Immune Signaling and Inflammation","description":"The GO terms show several immune-related processes: NOD2 signaling pathway, positive regulation of type 2 immune response, inflammatory response, and NF-kappaB-related regulatory activity. While some terms refer to mitosis, translation, or sporulation, the immune/inflammatory terms predominately define the cluster, suggesting proteins involved in innate immune signaling and inflammatory responses.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070431","count":2},{"id":"GO:0002830","count":2},{"id":"GO:0032088","count":2}]},{"hash":"458266246901101574","title":"Developmental Signaling and Differentiation","description":"The cluster features GO terms centered on development (multicellular organism development, cartilage condensation, neuron maturation regulation) and transcription (DNA-templated transcription), suggesting a core theme of developmental programs and transcriptional control. Additional terms point to broader signaling and metabolic regulation (interleukin-2 signaling, vitamin D3 metabolism) with reproductive and growth-related contexts (sperm capacitation, filamentous growth signaling), indicating that while there is some functional diversity, the shared theme is developmental differentiation mediated by signaling and transcriptional regulation.","confidence":"Medium","size":13,"edges":32,"triangles":35,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0046827","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0048240","count":6}]},{"hash":"1270105374090443751","title":"Unknown","description":"The top GO terms are highly diverse, covering metabolism, chromatin dynamics, immune and neural development, and various stress/signaling responses, with no clear shared function or pathway tying them together. The lack of edges/trianlges further supports no cohesive interaction signal, so a precise, representative label cannot be assigned beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042853","count":2},{"id":"GO:0051572","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0048240","count":1}]},{"hash":"767939892176703084","title":"Potassium Homeostasis and Membrane Potential Regulation","description":"The top GO terms cluster around potassium ion transport, intracellular potassium homeostasis, and stabilization/regulation of membrane potential (including cardiac repolarization), indicating the proteins mainly participate in ionic balance and electrical signaling; a few terms relate to redox homeostasis and cytoskeletal/cell-cycle roles as minor outliers.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0071805","count":1},{"id":"GO:0098914","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0030007","count":1}]},{"hash":"380986006445879803","title":"Embryonic organogenesis and tissue development","description":"These proteins cluster around formation and patterning of organs and tissues during embryonic development\u2014bone ossification, cartilage condensation, kidney development, pronephros morphogenesis, and neural tube development\u2014suggesting a shared role in vertebrate organogenesis. Some terms related to neural signaling and circadian regulation appear as peripheral associations, possibly reflecting broader developmental regulation or pleiotropy.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0001822","count":2},{"id":"GO:1903206","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0072114","count":1}]},{"hash":"569487749567153276","title":"RNA processing and translation initiation","description":"This cluster centers on translation initiation and related RNA processing events. Notable terms include eIF4F complex assembly (GO:0097010), translation initiation (GO:0002188), and formation of the translation preinitiation complex (GO:0001731), as well as translation reinitiation (GO:0002188). It also includes mRNA export from the nucleus (GO:0006406), positive regulation of mRNA splicing via spliceosome (GO:0048026), and regulation of mRNA stability in response to stress (GO:0010610). Together these terms suggest a module that co-regulates RNA processing and the initiation/reinitiation of translation, forming a cohesive RNA metabolism/translation hub.","confidence":"Medium","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0006406","count":4},{"id":"GO:1903586","count":4},{"id":"GO:1901407","count":4},{"id":"GO:0075525","count":4}]},{"hash":"2091543378884808750","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by ribosome-related processes: ribosome biogenesis, large subunit biogenesis, preinitiation complex formation, translation initiation and reinitiation, and ribosome disassembly, with nonfunctional rRNA decay supporting ribosome quality control. A minority term about antibiotic response may reflect ribosome-targeting effects rather than a separate pathway.","confidence":"High","size":13,"edges":45,"triangles":64,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0070651","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1950409374691752245","title":"Immune signaling and RNA processing regulators","description":"The top GO terms suggest innate immune signaling (NOD2 pathway, chemokine production, cell migration) alongside transcriptional/post-transcriptional regulation (mRNA processing and mRNA stability). Although some terms are obsolete or peripheral, the dominant pattern points to proteins involved in regulating immune responses through gene expression control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0070198","count":1}]},{"hash":"1000110073876114027","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":1},{"id":"GO:0006167","count":1},{"id":"GO:0042417","count":1},{"id":"GO:0045892","count":1},{"id":"GO:0001975","count":1}]},{"hash":"152333784881163002","title":"Peptide and polyamine acetylation","description":"The top GO terms cluster around acetylation events and related metabolic steps (N-terminal and lysine acetylation, histone H4 acetylation, spermidine and putrescine acetylation, plus N-acetylglucosamine metabolism and mycothiol biosynthesis), indicating a cohesive acetyltransferase/acetylation-focused module across substrates.","confidence":"High","size":13,"edges":74,"triangles":243,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0017196","count":12},{"id":"GO:0006044","count":12},{"id":"GO:0010125","count":12},{"id":"GO:0018003","count":12},{"id":"GO:0032918","count":12}]},{"hash":"288642740839824962","title":"Animal Development and Tissue Formation","description":"The top GO terms cluster around development and growth in multicellular animals\u2014skin development, cerebral cortex development, multicellular organism development and growth, and sensory perception of pain\u2014indicating a theme of tissue formation and organ development. Some terms (e.g., cellular response to cAMP, protein homooligomerization) are general cellular processes that support development, while a couple (nitrate assimilation, obsolete aging) are less related and may reflect noise or divergent annotations. Overall, the group centers on animal developmental biology.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071320","count":2}]},{"hash":"1639631853327626475","title":"RNA Processing and Splicing Machinery","description":"This cluster is dominated by RNA biology terms: transcription termination by RNA polymerase II, histone mRNA metabolism, tRNA processing, mRNA processing including deadenylation-dependent decapping, and spliceosome-related processes (cis splicing, snRNP and spliceosomal complex assembly). The combination points to a cohesive module centered on RNA metabolism and splicing, with occasional links to broader cellular programs (e.g., cell cycle regulation). Overall, the label captures the core function of the cluster.","confidence":"High","size":12,"edges":25,"triangles":26,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":6},{"id":"GO:0070317","count":5},{"id":"GO:0008334","count":5},{"id":"GO:0008033","count":5},{"id":"GO:0042633","count":5}]},{"hash":"2094761936170818100","title":"Endosomal trafficking and membrane transport","description":"The terms cluster around intracellular transport involving endosomes (early to late endosome, endosome to Golgi, endosome to lysosome, and cytoplasm to vacuole via the Cvt pathway) and general membrane transport, with involvement of GTPase activity regulation. A few mitosis-related terms are present, but the dominant pattern is endosomal/membrane trafficking rather than cell division. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015992","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0034498","count":2}]},{"hash":"1421763097339208942","title":"DNA replication and cell division","description":"The most represented GO terms are DNA replication and cell division, with four and three proteins mapped respectively, indicating a core involvement in genome duplication and mitotic progression. Other terms appear less frequent and may reflect miscellaneous or context-specific roles, but the dominant signal points to cell cycle-related activity. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0071374","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0001707","count":2}]},{"hash":"1273853715953653114","title":"mRNA processing and translation initiation","description":"This cluster centers on mRNA processing and translation initiation; the top terms include mRNA export, spliceosome-mediated splicing, polyadenylation regulation, mRNA stability in stress, and formation of the translation preinitiation complex, indicating a coordinated role in preparing mRNA for translation.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:1903586","count":2},{"id":"GO:1901407","count":2}]},{"hash":"178285696724668701","title":"Filopodium formation and cytoskeletal signaling","description":"The cluster centers on actin cytoskeleton remodeling: filopodium assembly, regulation of GTPase activity, and small GTPase\u2013mediated signaling, along with cellular responses to mechanical stimuli and adhesion-dependent cell spreading. These terms together point to dynamic cytoskeletal rearrangements and cell motility as the core function, with a minor contribution from mitochondrial fission and bone-related terms that are less central to the main theme.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0000266","count":3}]},{"hash":"65506793857720516","title":"Metabolic Regulation and Energy Homeostasis","description":"The top GO terms center on metabolic control and energy balance, including glucose homeostasis, fatty acid oxidation, and adipose tissue development, with leptin signaling tying metabolism to hormonal regulation. Transcriptional control and nutrient-stress-related terms (DNA-templated transcription, biotin starvation response) suggest a broader regulatory module connecting metabolism with growth and reproduction, though the links are indirect. Overall, the dominant theme is metabolic regulation and energy homeostasis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1990383","count":3},{"id":"GO:0046322","count":3},{"id":"GO:0001542","count":3},{"id":"GO:1904179","count":3},{"id":"GO:0036049","count":3}]},{"hash":"52909647331137089","title":"Cell proliferation and membrane trafficking","description":"The cluster shows multiple proliferation-related terms (cell population proliferation, myoblast proliferation, endothelial development) alongside membrane-associated processes (SRP-dependent targeting to membrane, vesicle docking in exocytosis, membrane addition during cytokinesis, regulation of filopodium assembly). Together, these suggest proteins involved in cell growth/division coupled with membrane trafficking and cytoskeletal dynamics.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010269","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0006614","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0007107","count":2}]},{"hash":"2281502744145857649","title":"Unknown","description":"The terms are a mix of tissue development (glands, heart, seed) and chromatin/epigenetic regulation (histone methylation, histone acetylation, DNA methylation) plus an immune signal (IL-6 production); this combination lacks a single clear functional theme, so a specific, representative cluster name cannot be determined.","confidence":"","size":12,"edges":12,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032635","count":2},{"id":"GO:1903699","count":2},{"id":"GO:1903709","count":2},{"id":"GO:0097676","count":2},{"id":"GO:0090309","count":2}]},{"hash":"377466232679426968","title":"RNA Decay and Cell Cycle","description":"Classification is driven by the recurring GO terms about RNA decay pathways (nonfunctional rRNA decay; non-stop decay) and core nuclear events (mitotic and meiotic cell cycles, meiotic DSB processing). These suggest a cluster enriched in RNA quality control linked to genome maintenance during cell division, while other terms appear more peripheral.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070651","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0051321","count":2},{"id":"GO:0001403","count":2}]},{"hash":"2195463474702228771","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000920","count":3},{"id":"GO:0030900","count":3}]},{"hash":"2289746617129819657","title":"Unknown","description":"The terms span ubiquitination, transcription/mRNA regulation, cell migration, immune-related chemokine production, meiotic recombination, myeloid apoptosis, and metabolic/thermosensory processes (temperature sensing, brown fat differentiation), along with chromosomal telomeric localization and an obsolete transcriptional regulation term. This broad, heterogeneous mix does not point to a single cohesive function for the cluster, so an Unknown label is most appropriate.","confidence":"","size":12,"edges":23,"triangles":1,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0016567","count":7},{"id":"GO:0070198","count":6},{"id":"GO:0000083","count":6},{"id":"GO:0016477","count":6},{"id":"GO:2000340","count":6}]},{"hash":"1064436646012259814","title":"Mitochondrial Metabolism and Stress Signaling","description":"The cluster shows a strong mitochondrial focus: metabolic transport (thiamine pyrophosphate, manganese, glycine import), responses to amino acid starvation, and IGF signaling, combined with mitochondrial membrane dynamics (fission and permeability) and apoptosis/necrosis-related changes. This pattern points to a cohesive theme of mitochondrial metabolism coupled with stress responses and cell death signaling.","confidence":"High","size":12,"edges":40,"triangles":45,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":11},{"id":"GO:0036233","count":11},{"id":"GO:0060546","count":11},{"id":"GO:0090149","count":11},{"id":"GO:0000002","count":11}]},{"hash":"678402081210665975","title":"Amino acid import across plasma membrane","description":"The top GO terms are dominated by import/transport of various amino acids across the plasma membrane (arginine, methionine, lysine, ornithine, D-serine, D-alanine), indicating the cluster centers on amino acid membrane transport. A glycogen biosynthesis and a nitric oxide production term appear but are secondary and less representative of the overall pattern. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":2},{"id":"GO:0006527","count":1},{"id":"GO:0097638","count":1},{"id":"GO:0044690","count":1},{"id":"GO:0042942","count":1}]},{"hash":"1942763766398318195","title":"Mitochondrial respiration and Fe-S cluster biogenesis","description":"Explanation: The terms cluster around mitochondrial energy metabolism, including mitochondrial electron transport, respirasome assembly, and aerobic respiration, along with iron-sulfur cluster assembly/maturation. This points to proteins involved in mitochondrial respiration and Fe-S cluster biogenesis. A couple of broader terms (translation/transcription) may be secondary annotations or incidental.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016226","count":1},{"id":"GO:0097428","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0006123","count":1}]},{"hash":"1668621152035810","title":"ER-targeted protein targeting and Sec translocation","description":"This cluster is dominated by GO terms related to directing proteins to the endoplasmic reticulum and translocating them via SRP and the Sec complex, indicating a shared role in ER targeting and membrane translocation. A few other terms (metabolic and developmental) appear as minor outliers and do not redefine the main theme.","confidence":"High","size":11,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043427","count":1},{"id":"GO:0033611","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0043952","count":1},{"id":"GO:0039019","count":1}]},{"hash":"391836033281044160","title":"Heat and ER stress response with translation regulation","description":"This cluster is driven by GO terms for heat response and ER stress\u2013driven translation initiation, including negative regulation of heat response and post-translational targeting, suggesting proteins involved in cellular stress responses and regulation of protein synthesis under heat/ER stress; peripheral terms like DNA replication and redox homeostasis may reflect broader stress-related processes.","confidence":"High","size":11,"edges":25,"triangles":24,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009408","count":5},{"id":"GO:0071374","count":5},{"id":"GO:0006626","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0006260","count":5}]},{"hash":"152786901233801461","title":"MAPK/JNK Signaling in Neuronal Morphogenesis","description":"The top terms cluster around MAPK pathway regulation (MAPKK activation, JNK cascade), plus processes in neuronal shape changes (axon extension, dendrite morphogenesis) and focal adhesion dynamics, suggesting a theme of signaling-driven neuronal development and cytoskeletal remodeling. Immune-related signaling terms (TCR and ephrin signaling) may reflect shared signaling cascades rather than a single cell type, so the label emphasizes MAPK-mediated neuronal morphogenesis.","confidence":"Medium","size":11,"edges":46,"triangles":98,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0031647","count":4}]},{"hash":"819667008601025585","title":"Mitotic chromosome dynamics and cell cycle control","description":"This cluster is dominated by GO terms related to mitosis and cell-cycle progression (exit from mitosis, cell division, cell cycle, mitotic chromosome condensation, mitotic metaphase chromosome alignment), pointing to roles in mitotic progression and chromosome handling. Co-occurring terms on vesicle trafficking (multivesicular body assembly/sorting) and ER targeting may reflect accessory pathways connected to mitosis, but the core theme is mitosis and chromosome dynamics.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902902","count":4},{"id":"GO:0036258","count":3},{"id":"GO:0010458","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1115838082070047782","title":"Vacuolar amino acid transport","description":"The cluster is dominated by GO terms for transmembrane import of various amino acids into the vacuole (arginine, histidine, lysine, serine, glutamine, asparagine) and related nutrient-starvation responses, suggesting a cohesive vacuolar amino acid transport function.","confidence":"High","size":11,"edges":36,"triangles":55,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0090518","count":3},{"id":"GO:2000487","count":3},{"id":"GO:0089708","count":3},{"id":"GO:0090517","count":3},{"id":"GO:0051365","count":3}]},{"hash":"1552216525495921651","title":"Chromatin Regulation and Genome Maintenance","description":"This cluster combines GO terms pointing to chromatin-associated regulation (SAGA complex localization to transcription regulatory region; histone deubiquitination), RNA processing (mRNA export), protein turnover (proteasome assembly), and genome stability (double-strand break repair by homologous recombination; maintenance of DNA repeats). These collectively suggest a core theme of controlling gene expression via chromatin state and ensuring genome integrity, with some unrelated metabolic signaling terms likely representing broader or incidental associations.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":2},{"id":"GO:0048662","count":2},{"id":"GO:0010642","count":2},{"id":"GO:0072742","count":1},{"id":"GO:0006406","count":1}]},{"hash":"935424243146636336","title":"Telomere maintenance and telomere localization","description":"The cluster is dominated by telomere-related GO terms (maintenance by telomerase, telomere capping, and localization to chromosome telomeric regions), suggesting a core theme around telomere regulation and chromosome organization, with a few ancillary terms pointing to cell cycle control and differentiation.","confidence":"Medium","size":11,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":5},{"id":"GO:1904355","count":5},{"id":"GO:0035994","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0016477","count":5}]},{"hash":"962598877517967100","title":"Transcriptional Regulation in Development Signaling","description":"Top GO terms indicate focus on transcription regulation (RNA Pol II\u2013mediated), DNA-templated transcription, and mRNA transport, with links to development (skin development, multicellular organism development) and growth-related signaling (mitotic cell cycle, hypoxia, TGF-beta response). Although edges are absent, the shared theme is transcriptional control integrated with developmental and signaling processes, rather than a single complex. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1667725240774508723","title":"Unknown","description":"The terms span nucleotide biosynthesis, development, chromatin regulation, and apoptosis, with no clear common function and no protein interactions, so there is no cohesive theme to label beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006183","count":1},{"id":"GO:0048515","count":1},{"id":"GO:0003351","count":1},{"id":"GO:0006241","count":1},{"id":"GO:0021591","count":1}]},{"hash":"1250946825961604573","title":"Unknown","description":"The top GO terms include mitotic cell cycle processes alongside neuronal development (dendrite and spine formation, radial glial scaffolds) and also bone resorption and lipoprotein particle assembly, suggesting no single cohesive biological function for this cluster. The mix of cell division with diverse differentiation pathways points to broad or inconsistent annotations rather than a shared function.","confidence":"","size":11,"edges":18,"triangles":10,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1990386","count":10},{"id":"GO:0034629","count":10},{"id":"GO:0007049","count":10},{"id":"GO:0010513","count":10},{"id":"GO:2000171","count":10}]},{"hash":"1032379951783975713","title":"Unknown","description":"These 11 proteins are annotated with a highly diverse set of GO terms, spanning signaling (positive regulation of GTPase activity), differentiation (lung epithelial cell differentiation), neural functions (short-term memory, visual perception), cell division (regulation of cytokinesis), transcription regulation, energy metabolism (ATP-dependent activity), and even mating-related processes (karyogamy). The lack of a single shared biological theme and the absence of any network connectivity (edges, triangles, or notable degree) suggest there is no coherent functional module to name. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0060487","count":3},{"id":"GO:0007614","count":3},{"id":"GO:0032465","count":3},{"id":"GO:0045944","count":3}]},{"hash":"1598229348320122213","title":"Unknown","description":"The Top Terms are a mix of developmental processes (hemopoiesis, monocyte differentiation, neural tube and lung development, cartilage condensation) and general regulatory processes (transcription elongation, DNA damage checkpoint), plus an outlier viral mRNA export term. With no edges or network structure to link these functions, there is no single cohesive theme tying the proteins together. Label: Unknown due to lack of clear common function.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060215","count":1},{"id":"GO:0046784","count":1},{"id":"GO:2000002","count":1},{"id":"GO:0030224","count":1},{"id":"GO:0032786","count":1}]},{"hash":"584375451485607869","title":"Chemokine production and myeloid cell migration","description":"The top terms highlight positive regulation of chemokine production (CXCL1 and CXCL5) and cell migration, plus myeloid cell apoptotic processes, pointing to a theme of chemokine-mediated immune signaling and immune cell trafficking. Other terms are more general or less connected, so the label emphasizes the strongest cohesive function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070198","count":2},{"id":"GO:0000083","count":2},{"id":"GO:0016477","count":2},{"id":"GO:2000340","count":2},{"id":"GO:0010845","count":2}]},{"hash":"1045188262120051562","title":"Methylation and Biosynthesis","description":"The Top Terms show a clear emphasis on methylation-related processes (N-terminal trimethylation, tRNA methylation, rRNA methylation) together with multiple biosynthetic pathways (ubiquinone, cobalamin, phosphatidylcholine). This points to a theme centered on cellular modification and biosynthesis activities, rather than a single, tightly defined pathway. Confidence: Medium","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018012","count":2},{"id":"GO:0006744","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0001300","count":2}]},{"hash":"743290205069941769","title":"Glycosylation and Fucosylation Pathways","description":"The main GO terms cluster around glycan biosynthesis and modification\u2014L-fucose catabolic process, Lewis a epitope biosynthesis, N-glycan fucosylation, oligosaccharide metabolism, and protein glycosylation\u2014suggesting these proteins are linked by glycosylation/fucosylation functions; a few terms related to neuronal/immune migration may reflect downstream roles of glycans in cell interactions rather than a single primary activity. Overall, the theme is glycan biosynthesis and fucosylation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021799","count":1},{"id":"GO:0042355","count":1},{"id":"GO:0097150","count":1},{"id":"GO:0002522","count":1},{"id":"GO:0010493","count":1}]},{"hash":"1261396373172619223","title":"Circadian-Driven Cardiac Signaling","description":"The terms point to cardiac electrophysiology (atrial/ventricular depolarization, Bundle of His) and heart development (left ventricle morphogenesis), while also highlighting circadian and thermo-sensory signaling (circadian sleep regulation, temperature detection, caffeine response). Together these suggest a cluster centered on signaling pathways that couple heart function with circadian and sensory cues, with a few outliers that are not central to the main theme.","confidence":"Medium","size":10,"edges":15,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":2},{"id":"GO:0086043","count":2},{"id":"GO:0021750","count":2},{"id":"GO:0007216","count":2},{"id":"GO:0071313","count":2}]},{"hash":"455459071695853202","title":"Vertebrate Development and Morphogenesis Signaling","description":"The top GO terms cluster around neural tube closure, various organ development processes (skeletal system, seminiferous tubule development, lung morphogenesis), and reproductive development, all supported by signaling pathways (GPCR-PLC signaling) and regulation of protein kinase activity and the cell cycle\u2014together pointing to integrated developmental signaling and morphogenesis in vertebrates.","confidence":"High","size":10,"edges":19,"triangles":13,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0072520","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0007275","count":2}]},{"hash":"104921984427194511","title":"Energy Metabolism and Mitochondrial tRNA Modification","description":"Based on the GO terms, the cluster centers on metabolic energy production (glycolysis, lipoate metabolism, amino acid catabolism) and RNA modification processes (tRNA methylation, mitochondrial tRNA wobble uridine modification), with a side emphasis on redox homeostasis. This combination suggests proteins involved in energy metabolism with associated RNA modification pathways, likely reflecting mitochondrial-associated functions.","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0048240","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0009106","count":1},{"id":"GO:0007568","count":1}]},{"hash":"459221816536475786","title":"DNA Replication and Cell Cycle","description":"The cluster is dominated by GO terms for DNA replication, DNA repair, mitotic cell cycle, and DNA-templated transcription, indicating core nuclear processes governing genome maintenance and division; additional terms like dendrite morphogenesis and axon extension suggest peripheral roles in signaling and neuronal development, but the strongest signal is DNA replication/repair and cell cycle.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006281","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0000186","count":5}]},{"hash":"542636070165758359","title":"Immunometabolism","description":"This cluster centers on metabolic pathways (sulfur amino acid metabolism, serine and homocysteine catabolism, fatty acid biosynthesis, gluconeogenesis) and ion transport (Mg2+), with immune-related signals (cellular response to interleukin-4 and lymphocyte proliferation) suggesting a link between metabolism and immune cell regulation. Confidence: Medium","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070814","count":5},{"id":"GO:0043418","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0006633","count":5},{"id":"GO:0031460","count":5}]},{"hash":"1833432174856892617","title":"Negative Regulation of Cellular Processes","description":"Most of the top GO terms point to negative regulation roles affecting diverse processes (store-operated Ca2+ channel activity, GPCR internalization, mitochondrial fusion, glucokinase activity, intralumenal vesicle formation, nucleotide-excision repair, transcription, and translation). This suggests the cluster comprises regulatory proteins that broadly dampen multiple pathways rather than a single pathway. A few terms (positive regulation of erythrocyte differentiation) are peripheral but do not contradict the overall regulatory theme; deglycosylation is a related post-translational regulation aspect. ","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":5},{"id":"GO:1905366","count":5},{"id":"GO:1901340","count":5},{"id":"GO:0006357","count":5},{"id":"GO:0045648","count":5}]},{"hash":"28332795740617475","title":"Fatty acid oxidation and heart development","description":"This cluster's top GO terms center on fatty acid metabolism and oxidation (long-chain fatty acid catabolic process, fatty acid beta-oxidation, carnitine metabolic process) alongside cardiac-related biology (heart development, cardiac muscle cell differentiation). The recurring theme ties lipid energy metabolism to heart muscle formation, despite a few outlier terms. Therefore, labeling as fatty acid oxidation linked to cardiac development is appropriate.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019254","count":1},{"id":"GO:0006694","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0033540","count":1}]},{"hash":"1325071493295007677","title":"Ubiquitin\u2013proteasome system components","description":"The GO terms center on ubiquitin ligase activity (SCF), proteasome core complex assembly, and proteolytic processes that depend on or bypass ubiquitin. This points to a cluster enriched for ubiquitin-proteasome system machinery involved in protein turnover, cell-cycle regulation, and related stress signaling (salt and zinc responses, NF-kappaB, and Wnt pathways). Overall, the proteins likely function together in proteostasis and regulated degradation during signaling and mitosis.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051436","count":6},{"id":"GO:0051437","count":6},{"id":"GO:0009651","count":6},{"id":"GO:0090090","count":6},{"id":"GO:0038061","count":6}]},{"hash":"1854853513090510767","title":"Unknown","description":"The top GO terms span diverse processes (DNA repair and UV response, RNA splicing, proteostasis, proteolysis, and even plant-specific phytochelatin biosynthesis) with only a single connection between proteins, so there isn\u2019t a cohesive function to name the cluster beyond Unknown.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0046938","count":2},{"id":"GO:1904715","count":2}]},{"hash":"1043321102546784757","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070535","count":2},{"id":"GO:0009688","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007266","count":2}]},{"hash":"1853428515039504164","title":"Cell Cycle, Proliferation, and Maturation","description":"The cluster shows strong enrichment for cell cycle, cell division, and cell population proliferation, with additional signals of maturation (neuron maturation, sperm capacitation) and various signaling responses (cAMP, corticosterone), suggesting a core theme of cellular growth and developmental progression.","confidence":"Medium","size":10,"edges":12,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0048240","count":3},{"id":"GO:0071320","count":3}]},{"hash":"711908644637886794","title":"Sterol and Lipid Biosynthesis","description":"The proteins show a clear focus on lipid and sterol metabolism, with multiple GO terms for sterol biosynthesis (cholesterol via lathosterol, ergosterol) and related oxidation steps, plus fatty acid and sphingolipid metabolic processes. Some terms relate to lipid-rich tissues (sebaceous gland differentiation, CNS myelin maintenance), supporting a lipid-centric functional theme. A few terms are peripheral, but the dominant signal is sterol and lipid biosynthesis/metabolism.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0035754","count":1},{"id":"GO:0080064","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0033490","count":1}]},{"hash":"1456417932272375193","title":"Wnt signaling in neural differentiation","description":"This cluster is dominated by terms tied to neural development and signaling, notably the canonical Wnt pathway and neuron fate determination, with additional hints of oligodendrocyte differentiation. The endosome localization and organelle turnover terms (reticulophagy, vacuole fusion) likely reflect vesicular trafficking and intracellular quality control that modulate signaling and differentiation processes. While cell division appears, the strongest cohesive theme is neural development shaped by Wnt signaling and associated trafficking dynamics.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0060070","count":3},{"id":"GO:0048714","count":2},{"id":"GO:0010821","count":2}]},{"hash":"1110213823342506992","title":"TLR4/LPS Innate Immune Signaling","description":"The cluster centers on innate immune responses mediated by Toll-like receptor signaling and lipopolysaccharide (LPS) pathways, including TLR4 signaling and modulation of MyD88-independent pathways, with necroptosis reflecting inflammatory cell death; auxiliary terms related to detoxification and cholesterol metabolism may reflect metabolic-immune coupling but do not redefine the main theme.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0008203","count":1},{"id":"GO:0034128","count":1},{"id":"GO:0070266","count":1},{"id":"GO:0007611","count":1}]},{"hash":"1858777431106794329","title":"Unknown","description":"The top GO terms cover mitochondrial fission, synaptic vesicle exocytosis, translation initiation and its regulation, histone deubiquitination, and other diverse processes, showing no single cohesive function or pathway that ties all proteins together. This heterogeneity suggests no clear, shared theme for a concise label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0016079","count":2},{"id":"GO:0070452","count":1},{"id":"GO:0051726","count":1},{"id":"GO:0001731","count":1}]},{"hash":"1601580526990826854","title":"Epigenetic Transcription Regulation and Protein Homeostasis","description":"This cluster is dominated by terms related to DNA-templated transcription and chromatin state, including DNA methylation-dependent heterochromatin formation and histone deacetylation, along with negative regulation of protein ubiquitination and misfolded protein transport, pointing to coordinated epigenetic control of gene expression with links to protein quality control and turnover (mitophagy and cohesin loading appear as broader cellular regulation connections). ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006346","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0070846","count":2},{"id":"GO:0045668","count":2}]},{"hash":"1841242680705599866","title":"Calcium transport and signaling in excitable tissues","description":"The GO terms show calcium ion transport across plasma and mitochondrial membranes and calcium-dependent signaling, including long-term synaptic potentiation/depression and regulation of muscle contraction, suggesting a cohesive theme of calcium-driven signaling in neurons and muscle.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":2},{"id":"GO:0098703","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0014819","count":1},{"id":"GO:0006828","count":1}]},{"hash":"1748438091525529287","title":"Neuronal Synaptic Transmission and Calcium Signaling","description":"The top GO terms cluster around synaptic activity: long-term potentiation, regulation of synaptic vesicle exocytosis, neurotransmitter secretion, and calcium-responsive signaling, with related phosphoinositide signaling and GTPase regulation. This points to core neuronal communication and calcium-dependent vesicle release as the main function of the cluster. A few terms (VEGF receptor signaling and abscisic acid signaling) are broader or cross-kingdom annotations and do not change the central theme. ","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0036324","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0007269","count":2}]},{"hash":"897039321022049537","title":"Bacterial lipid and quinone metabolism with antibiotic biosynthesis","description":"The GO terms cluster around fatty acid beta-oxidation (lipid metabolism) and quinone biosynthesis (phylloquinone and menaquinone), plus antibiotic biosynthetic processes and various aromatic compound catabolic pathways. This points to a cohesive theme of bacterial energy metabolism linked to quinone cofactor production and secondary metabolite biosynthesis, with sporulation as a potential lifestyle cue. Confidence: Medium","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":8},{"id":"GO:0042372","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006574","count":6},{"id":"GO:0009234","count":6}]},{"hash":"522870410514967776","title":"Ion Transport and Cardiac Membrane Depolarization","description":"The cluster is dominated by GO terms for potassium and sodium ion movement across the plasma membrane and related membrane depolarization processes in cardiac tissue (e.g., atrial muscle cell depolarization, bundle of His AP). While a few terms relate to circadian or signaling responses, the strongest signal ties to ion transport and membrane excitability, especially in cardiac contexts.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097623","count":2},{"id":"GO:0030007","count":2},{"id":"GO:0098719","count":2},{"id":"GO:0045188","count":1},{"id":"GO:0086043","count":1}]},{"hash":"1902008175497259951","title":"Metal ion transport and homeostasis","description":"This cluster shows strong representation of zinc ion-related processes (response to zinc, detoxification, transport) and includes cobalt, iron, and cadmium ion transport terms, indicating a unifying theme of metal ion homeostasis and transmembrane handling; a negative regulation of zinc import further supports regulated metal homeostasis.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010043","count":2},{"id":"GO:0061090","count":2},{"id":"GO:0010312","count":2},{"id":"GO:0006877","count":2},{"id":"GO:0032119","count":2}]},{"hash":"625494384233691776","title":"Mitochondrial Translation and Ribosome Biogenesis","description":"The top GO terms are dominated by translation-related processes, especially mitochondrial translation initiation/termination, LSU-rRNA maturation, and large subunit ribosome assembly, indicating a cohesive role in ribosome biogenesis and mitochondrial protein synthesis; minor terms like transcription regulation and immune signaling are peripheral.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:1901194","count":2},{"id":"GO:0070124","count":1},{"id":"GO:0070126","count":1},{"id":"GO:0071353","count":1}]},{"hash":"1561972722874572623","title":"Cytoskeletal dynamics and intracellular transport","description":"This cluster centers on cytoskeletal remodeling across actin and microtubules, including contractile ring assembly, microtubule polarity and spindle orientation, kinetochore attachments, chromosome alignment, and transport along microtubules, reflecting roles in cell division, nuclear migration, and intracellular cargo movement.","confidence":"High","size":9,"edges":33,"triangles":64,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000915","count":5},{"id":"GO:0036334","count":5},{"id":"GO:0007080","count":5},{"id":"GO:0030951","count":5},{"id":"GO:0000743","count":5}]},{"hash":"105512704097745950","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0051402","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0008615","count":2}]},{"hash":"2208560025881303620","title":"DNA replication, transcription, and repair cluster","description":"The top GO terms are core nuclear processes: DNA-templated transcription, DNA replication, and DNA repair, along with mitotic cell cycle. A few peripheral terms (sperm capacitation, cartilage condensation, signaling pathways, vitamin D metabolism) are less central to the dominant theme. Therefore this cluster best represents DNA maintenance and cell-cycle\u2013related activities.","confidence":"High","size":9,"edges":20,"triangles":20,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006260","count":9},{"id":"GO:0006281","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0048240","count":7}]},{"hash":"601941269588104684","title":"Transcriptional Regulation in Myoblast Differentiation","description":"The top GO terms point to DNA-templated transcription and processes tied to muscle development (myoblast differentiation) as well as regulatory signaling (Notch) and vascular formation (vasculogenesis). This suggests the cluster groups proteins involved in transcriptional control during muscle cell differentiation, with some links to vascular development, though a few terms appear as less informative annotations (hydroxylation). Overall, a cohesive theme around transcriptional regulation in muscle differentiation emerges.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0045663","count":2},{"id":"GO:0045746","count":2},{"id":"GO:2001214","count":2},{"id":"GO:0061428","count":2}]},{"hash":"338432111200220209","title":"Carbohydrate catabolism cluster","description":"The top GO terms are dominated by sugar metabolism and carbohydrate processing (arabinose, xylose, fucose, gluconate, glucuronate, rhamnose) plus carbohydrate phosphorylation, indicating a core theme of carbohydrate catabolism. A few outlier terms related to immune development and quorum sensing appear, but the prevailing signal is sugar metabolism. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0048333","count":2},{"id":"GO:0035754","count":2},{"id":"GO:0019569","count":1},{"id":"GO:0042732","count":1}]},{"hash":"442944607875836884","title":"Membrane-associated immune and neural signaling","description":"This cluster centers on signaling processes at the cell membrane, including adhesion molecule production, cadherin-mediated adhesion, membrane raft localization, PKC signaling, IL-2 production, and TLR3 pathways, pointing to membrane-anchored regulation of immune and neuronal signaling. The presence of cardiolipin-related and mitochondrial DNA replication regulation suggests broader cellular regulation and potential mitochondrion\u2013signaling cross-talk. Overall, it reflects regulatory signaling roles at membranes with immune and neural implications.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060355","count":5},{"id":"GO:2000049","count":5},{"id":"GO:1903044","count":5},{"id":"GO:0052547","count":5},{"id":"GO:1900210","count":5}]},{"hash":"399240640081011098","title":"Ribosome biogenesis and cytoplasmic translation","description":"The cluster is dominated by GO terms for ribosome assembly (small and large subunits), export of ribosomal subunits from the nucleus, and cytoplasmic translation, plus tRNA modification, all pointing to the core protein-synthesis machinery. A few terms related to cell division appear, but the ribosome-related terms are the strongest signal, making this cluster best described as ribosome biogenesis and translation.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006400","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0051260","count":2}]},{"hash":"1987482733687893852","title":"Redox Homeostasis and Transcription Regulation","description":"The cluster contains redox-related terms (oxidation-reduction, cellular oxidant detoxification, redox homeostasis) alongside transcription and chromatin-related terms (positive regulation of DNA binding, regulation of DNA-templated transcription, positive regulation of chromatin binding), with developmental context signals (in utero embryonic development, aging, cell proliferation). This suggests a theme where redox state influences transcriptional regulation and chromatin dynamics during development and aging, possibly reflecting stress-response links such as response to cold.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0043388","count":2}]},{"hash":"1192564827129643749","title":"Transmembrane Ion and Metabolite Transporters","description":"The top GO terms are dominated by transmembrane transport of ions (phosphate, potassium, nitrate, sodium) and various metabolites (fucose, 4-hydroxyphenylacetate, vitamins), along with a transporter-related process like neurotransmitter loading into synaptic vesicles. This points to a cluster of membrane transporter proteins with diverse substrates, rather than a single substrate-specific function. Therefore the label focuses on overall transporter activity across membranes.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0006004","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0042891","count":1},{"id":"GO:0015706","count":1}]},{"hash":"67925893322254331","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0046328","count":1},{"id":"GO:0016310","count":1},{"id":"GO:1903764","count":1},{"id":"GO:0048541","count":1}]},{"hash":"1711867954053067272","title":"Ciliary assembly and embryonic patterning","description":"This cluster is best described as Ciliary assembly and embryonic patterning because the strongest signals are cilia-related: non-motile cilium assembly and protein localization to the ciliary transition zone. Additionally, neural tube patterning and embryonic digit morphogenesis indicate involvement in early developmental patterning, which frequently involves ciliary signaling. The lipid biosynthesis terms are present but don\u2019t outweigh the clear ciliary- and development-focused themes.","confidence":"Medium","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902321","count":1},{"id":"GO:0042759","count":1},{"id":"GO:0021532","count":1},{"id":"GO:0042733","count":1},{"id":"GO:1905515","count":1}]},{"hash":"182899270286116911","title":"Cellular oxidative and ER stress response","description":"The terms cluster around oxidative stress and redox management (oxidation-reduction, cellular oxidant detoxification, cellular response to oxidative stress) and ER-associated protein handling (protein folding, protein repair, response to endoplasmic reticulum stress, deglutathionylation), indicating a cohesive function in maintaining protein homeostasis under oxidative/ER stress. A few DNA-binding regulation terms appear, but they likely reflect regulatory factors linked to the stress response rather than a primary function of the cluster.","confidence":"High","size":9,"edges":10,"triangles":2,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006457","count":3},{"id":"GO:0080058","count":3}]},{"hash":"919476255168503723","title":"RNA modification and transcription regulation","description":"The cluster\u2019s top GO terms strongly point to gene expression control and RNA modification: DNA-templated transcription, regulation of transcription, rRNA modification, tRNA methylation, and N-terminal peptidyl-alanine trimethylation. While a few biosynthetic and stress-related terms (ubiquinone biosynthesis, phosphatidylcholine biosynthesis, aging, Tellurium response, nodulation) appear, they are less central to the cluster\u2019s core theme. Overall, the dominant signal ties to transcriptional control and RNA processing/modification, justifying this label.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000154","count":2},{"id":"GO:0018012","count":2},{"id":"GO:0006744","count":2}]},{"hash":"2013694749845425542","title":"Meiosis and genome stability regulation","description":"This cluster is enriched for meiotic processes (meiotic telomere clustering, reciprocal recombination) and genome maintenance (positive regulation of DNA repair, translesion synthesis, SCF-dependent proteasomal degradation, G2/M transition). The combination suggests a network coordinating meiosis, DNA repair, chromatin regulation, and cell-cycle control to preserve genome integrity, with a few peripheral terms such as JNK signaling and peroxisome import. ","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007254","count":9},{"id":"GO:0045141","count":9},{"id":"GO:0016562","count":9},{"id":"GO:0042276","count":9},{"id":"GO:0001701","count":9}]},{"hash":"267887556787982771","title":"Unknown","description":"The top GO terms span very different biological areas: transcription regulation (chromatin remodeling and RNA polymerase II elongation), development (oocyte construction), metal/homeostasis (copper transport and intracellular copper homeostasis), respiration chain assembly, bile acid transport, redox balance, and even a plant-specific defense response. With only a single edge and no shared functional theme, there isn't a coherent function tying these proteins together, so a meaningful label isn\u2019t identifiable. ","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0048096","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0007308","count":1},{"id":"GO:0045454","count":1}]},{"hash":"703642351307867124","title":"Cytokinesis and exocytosis regulation","description":"The cluster\u2019s top GO terms cluster around cell division and vesicle trafficking processes, notably regulation of cytokinesis and positive regulation of exocytosis, with supporting signaling processes like guanylate cyclase activity and protein dephosphorylation. While a few terms (e.g., bioluminescence, visual perception, cardiac hypertrophy) seem unrelated, the dominant theme points to cytokinesis and vesicle trafficking regulation as a core function of these proteins.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":3},{"id":"GO:0008218","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0032465","count":2},{"id":"GO:0031284","count":2}]},{"hash":"1058004204562249726","title":"Transcriptional Regulation & RNA Processing","description":"The strongest signals come from terms related to DNA-templated transcription, its regulation, and mRNA processing, suggesting a nuclear gene-expression module. However, other terms point to cytoskeletal (actin filament bundle assembly) and diverse metabolic/stress pathways (gluconeogenesis, inositol biosynthesis, ABA signaling, salt response), implying the cluster may be functionally diverse or only loosely connected.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0046855","count":2}]},{"hash":"593601732468522077","title":"Mitochondrial lipid biosynthesis and remodeling","description":"The cluster\u2019s GO terms cluster around lipid metabolism and mitochondrial membranes: CDP-diacylglycerol biosynthesis, ether lipid biosynthesis, cardiolipin acyl-chain remodeling, triglyceride biosynthesis, and mitochondrial ATP synthesis coupled electron transport. These collectively point to lipid production and mitochondrial membrane remodeling as a unifying theme. Some terms (e.g., cerebellum morphogenesis, cutin biosynthesis) are less related and may reflect noise or broad annotations, but the lipid/mitochondrial signal is clear and dominant.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002071","count":1},{"id":"GO:0006663","count":1},{"id":"GO:0070236","count":1},{"id":"GO:0010143","count":1},{"id":"GO:0019432","count":1}]},{"hash":"1193324210905761949","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":26,"triangles":44,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046900","count":4},{"id":"GO:0071320","count":4},{"id":"GO:0071400","count":4},{"id":"GO:0032868","count":4},{"id":"GO:0006207","count":4}]},{"hash":"2014763664904829039","title":"Multitissue development and morphogenesis","description":"This cluster's GO terms span development across multiple tissues (pituitary somatotropin cell development, seminiferous tubule development, osteoblast development, lung morphogenesis) and neuronal processes (neuron migration, maintenance of synapse structure, cerebral cortex regionalization), plus a common signaling pathway (GPCR-PLC signaling) that supports developmental processes. The broad theme is tissue morphogenesis and differentiation rather than a single, specific function.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060133","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0072520","count":1},{"id":"GO:0060490","count":1},{"id":"GO:0002076","count":1}]},{"hash":"174440088500309998","title":"Ribosome biogenesis and protein synthesis","description":"This cluster is dominated by translation (GO:0006412) and ribosomal small subunit assembly (GO:0000028), pointing to ribosome biogenesis and protein synthesis as the main theme. The protein interaction terms (homooligomerization/heterooligomerization) may reflect ribosomal protein assembly, and the cellular response to amino acid starvation suggests regulation linked to translation. A few metabolic GO terms appear but are not central to the core signal.","confidence":"Medium","size":8,"edges":18,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006351","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0043496","count":1}]},{"hash":"330727084766833290","title":"Cell growth, division, and genome maintenance","description":"The cluster includes cell division, telomere maintenance/capping, apoptosis, migration, epithelial polarity, and RNA processing terms, pointing to a broad theme of fundamental cellular organization, proliferation, and genome integrity rather than a single pathway.","confidence":"Medium","size":8,"edges":8,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0070682","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0097284","count":3}]},{"hash":"954147977226385010","title":"Developmental transcription and stress responses","description":"The top terms are centered on DNA-templated transcription and multiple developmental processes (neural tube closure, forebrain, skin, and skeletal development), with additional signals of cellular stress (ER-stress\u2013induced apoptotic signaling) and cell cycle regulation, suggesting a cluster of proteins involved in developmentally driven transcriptional programs that also engage stress responses. Confidence: Medium","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006935","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0043588","count":2}]},{"hash":"404344852399067150","title":"Cardiac conduction and auditory-vestibular signaling","description":"This cluster contains GO terms tied to cardiac electrophysiology (bundle of His action potential, atrial membrane depolarization, left ventricular morphogenesis) alongside sensory/ear-related terms (sensory perception of sound, vestibular nucleus development), suggesting a shared theme around excitability and signaling in both heart and sensory systems, with some supporting signaling pathways (GPCR glutamate signaling) and circadian influences.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0045188","count":1},{"id":"GO:0086043","count":1},{"id":"GO:0021750","count":1}]},{"hash":"1480963853882352396","title":"Calcium-regulated signaling and exocytosis control","description":"This cluster is dominated by GO terms tied to kinase activity regulation, protein dephosphorylation, calcium release control, and exocytosis, plus cytokinesis and cell budding. Together these point to a theme of calcium-influenced signaling that governs secretion and cell division, with other terms (transcription regulation and ubiquitination) playing supporting roles. The bioluminescence term is likely incidental.","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0008218","count":2},{"id":"GO:0010880","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0032465","count":2}]},{"hash":"1952541359199289144","title":"Unknown","description":"The top GO terms show disparate processes: RNA splicing machinery, responses to ions, hormone and nutrient signaling, viral interactions, autophagy regulation, and epithelial differentiation. There isn't a single, coherent biological function tying these eight proteins together. Therefore no meaningful label other than Unknown.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000388","count":1},{"id":"GO:0010226","count":1},{"id":"GO:0044321","count":1},{"id":"GO:0033197","count":1},{"id":"GO:2001165","count":1}]},{"hash":"392105634869507857","title":"Bacterial cell envelope biosynthesis","description":"This cluster is dominated by GO terms for lipid A biosynthesis and peptidoglycan biosynthesis, with diaminopimelate biosynthesis also relevant, pointing to bacterial cell wall and outer membrane (envelope) biosynthesis. Additional terms like glycolytic process and redox homeostasis may reflect general metabolism in the same organisms but do not overshadow the envelope theme. Thus the label accurately captures the core function suggested by the strongest terms.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009245","count":3},{"id":"GO:0006813","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1325722966957416930","title":"Protein and polyamine acetylation","description":"The top GO terms cluster around acetylation of various substrates, including N-terminal acetylation of peptides, peptidyl-lysine N6 acetylation, histone H4 acetylation, and acetylation of polyamines (spermidine, putrescine, spermine). There is also a related metabolic term (N-acetylglucosamine) and an angiogenesis term, which can be connected to transcriptional regulation via acetylation. Overall, the common theme is acetyltransferase-mediated modifications of proteins and polyamines, suggesting a functional cluster of acetylation pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0017196","count":4},{"id":"GO:0006044","count":4},{"id":"GO:0010125","count":4},{"id":"GO:0018003","count":4}]},{"hash":"1729047053559479586","title":"Golgi vesicle trafficking and SNARE assembly","description":"This cluster centers on transport involving the Golgi apparatus and vesicle fusion, including ER-to-Golgi, intra-Golgi, retrograde endosome-to-Golgi, and Golgi-to-plasma membrane pathways, as well as SNARE complex assembly. The presence of receptor recycling and mast cell histamine secretion regulation aligns with secretory pathway control in Golgi-related trafficking, supporting a cohesive Golgi vesicle trafficking theme.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0042147","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0006891","count":4}]},{"hash":"1033200458624725023","title":"TLR signaling and inflammation","description":"The proteins cluster around innate immune signaling, with multiple terms for Toll-like receptor pathways (TLR4 and TLR9), macrophage activation, inflammatory response, and cytokine regulation (including IL-18), suggesting a cohesive role in innate immune activation; the neuronal/development terms appear incidental rather than central to the cluster\u2019s main function.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":2},{"id":"GO:0016336","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0014041","count":2}]},{"hash":"1546579871560221560","title":"Aromatic catabolism and ribosome biogenesis","description":"Top GO terms point to degradation of aromatic compounds (beta-ketoadipate pathway, stilbene catabolic process) and to translation-related processes (translation, maturation of SSU-rRNA, transcription antitermination). This suggests a bacterial module where aromatic metabolism coexists with ribosome biogenesis/protein synthesis, possibly reflecting a coordinated response to toxic compounds. The strigolactone\u2013related terms may indicate plant-associated signaling but are less central; overall the link between aromatic catabolism and ribosome maturation best explains the cluster.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0016226","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0000462","count":1}]},{"hash":"1315357371021836465","title":"Developmental gene regulation and RNA processing","description":"The top terms point to transcriptional control (DNA-templated transcription), RNA processing (mRNA capping, ncRNA-mediated silencing), and ribosomal RNA maturation, along with developmental processes (mesoderm formation, cardiac muscle differentiation) and hormone signaling. This suggests the cluster encompasses proteins involved in regulating gene expression and RNA maturation during development, rather than a single enzymatic pathway. Some terms also touch on DNA-related processes, but the strongest signal is gene expression regulation and RNA processing in a developmental context.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071374","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0001707","count":2},{"id":"GO:1901621","count":2},{"id":"GO:2000727","count":2}]},{"hash":"1728024688462466107","title":"Neural development, migration, and adhesion","description":"This cluster is dominated by GO terms tied to neural differentiation and connectivity (oligodendrocyte differentiation, motor neuron migration, dendritic spine morphogenesis) and strong cell\u2013cell adhesion signals (integrin-mediated and heterotypic adhesion), suggesting coordinated neural development and synaptic organization. Wound healing and angiogenesis terms may reflect broader tissue remodeling contexts but align with migration and adhesion themes present in neural development.","confidence":"High","size":8,"edges":13,"triangles":5,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0048714","count":6},{"id":"GO:0050919","count":6},{"id":"GO:2000811","count":6},{"id":"GO:1902078","count":6},{"id":"GO:0042060","count":6}]},{"hash":"246665640076844","title":"Plant chromatin remodeling and epigenetic regulation","description":"The cluster\u2019s GO terms strongly point to chromatin remodeling and histone modification (including regulation of histone acetylation, histone deacetylation, and deubiquitination) as key functions, suggesting epigenetic control of gene expression. The presence of plant-development\u2013related terms (jasmonic acid response, seed growth, secondary cell wall biogenesis) indicates a developmental role in plants, tying chromatin regulation to growth. Although some terms are obsolete, the overall theme is coherent around chromatin-based regulation in plant biology.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071919","count":1},{"id":"GO:1900386","count":1},{"id":"GO:0035066","count":1},{"id":"GO:0010520","count":1},{"id":"GO:1901348","count":1}]},{"hash":"638008170345527149","title":"Epigenetic Regulation and RNA Modification","description":"The terms cluster around transcriptional control and multiple RNA/protein methylation and modification processes (e.g., negative regulation of transcription by RNA Pol II, rRNA and arginine methylation, tRNA modification, histone methylation). This points to a module involved in chromatin-level regulation and RNA processing/modification, with some metabolic terms that are less central. Overall, the proteins appear linked by epigenetic and RNA-modification activities.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0046496","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0031167","count":1},{"id":"GO:0090398","count":1}]},{"hash":"403329811766361360","title":"Neural Development and Axon Guidance","description":"This cluster is enriched for GO terms related to neural patterning and axon guidance, including Slit/Robo signaling, retinal ganglion cell axon guidance, and paranode localization, suggesting a shared role in neural development and axon navigation. While terms for heart/kidney development appear, the strongest signals point to neural development pathways and guidance cues.","confidence":"Medium","size":8,"edges":18,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":4},{"id":"GO:0043491","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0045663","count":3}]},{"hash":"694995551759254904","title":"Developmental Signaling and Transcription Regulation","description":"The proteins appear to be involved in multiple signaling pathways (Wnt, JNK, glucocorticoid signaling) and transcriptional control (positive regulation of RNA Pol II), with ubiquitin-related regulation (autoubiquitination) and differentiation processes (intestinal epithelial cells) as context. This suggests a cohesive module coordinating signaling cues with gene expression and cell differentiation, rather than a single pathway. ","confidence":"Medium","size":8,"edges":7,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0050808","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1817668974854112127","title":"Unknown","description":"The GO terms for this cluster are highly diverse, spanning globoside biosynthesis, cytoplasmic translation, molybdenum cofactor biosynthesis, pH regulation, DNA transformation competence, redox homeostasis, ergothioneine biosynthesis, and an obsolete metabolite pathway. There is no clear, single function tying these proteins together, so a coherent, specific label isn\u2019t justifiable.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001576","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0006885","count":1},{"id":"GO:0030420","count":1}]},{"hash":"980090177149520262","title":"Biosynthesis and RNA Modification","description":"This cluster is enriched for biosynthetic processes (antibiotic, ubiquinone, phosphatidylcholine biosynthesis) and RNA/protein modification (rRNA and tRNA methylation, N-terminal trimethylation) as well as transcriptional regulation, suggesting a core theme around biosynthesis and macromolecule modification; other terms like wound healing and cell growth appear more context-dependent. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0016049","count":2},{"id":"GO:0042060","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000154","count":1}]},{"hash":"2011936699698858968","title":"Unknown","description":"The GO terms span bone formation, energy metabolism, photosynthesis, ion homeostasis, general transport, circadian regulation, cardiac conduction, vestibular development, and glutamate GPCR signaling. This mix does not reveal a single coherent function or pathway linking all seven proteins, so a specific, representative label cannot be defined.","confidence":"","size":7,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0042773","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0030004","count":1}]},{"hash":"2068935926390753880","title":"Unknown","description":"The GO terms span diverse processes across different tissues (retinal and retinol metabolism, kidney development and urine regulation, steroid biosynthesis, endothelial apoptosis, stress-activated signaling, and drug metabolism), with no single dominant function tying the cluster together. A cohesive, specific label is not evident from the listed terms.","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":7},{"id":"GO:0042572","count":7},{"id":"GO:0043066","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0035809","count":5}]},{"hash":"1573305148059376251","title":"Embryonic development and chromatin remodeling","description":"The top GO terms hit multicellular organism development, gastrulation, and DNA-templated transcription, with related hints of chromatin assembly/remodeling (CENP-A chromatin assembly, histone deacetylation) and transcription regulation. Additional terms on actin dynamics and ER-Golgi transport fit cellular processes supporting development. Overall, the cluster appears tied to developmental programs that depend on epigenetic regulation and transcriptional control.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007568","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0016575","count":5},{"id":"GO:0007369","count":5},{"id":"GO:0046886","count":4}]},{"hash":"1652757721220357176","title":"Mitotic Cell Cycle Regulation","description":"This cluster is dominated by mitosis- and cell cycle\u2013related GO terms (cell cycle; negative regulation of CDK activity; protein localization to kinetochore; mitotic spindle midzone assembly), suggesting the proteins function primarily to control mitotic progression. Some terms also touch on broader cell morphology and signaling, but the strongest and most coherent theme is regulation of mitosis and cell cycle. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0051898","count":3},{"id":"GO:0097107","count":3}]},{"hash":"1632539671173068348","title":"Platelet signaling and granule secretion","description":"This cluster is driven by terms tied to platelet function, notably dense core granule exocytosis and protein secretion by platelets, which point to platelet granule release and signaling. Other terms such as hemopoiesis and negative regulation of blood vessel remodeling suggest hematopoietic and vascular context in which platelets operate. While insulin receptor signaling and Ras/Small GTPase pathways are general signaling modules, they can participate in platelet activation pathways as well. Overall, the dominant theme is platelet signaling and granule-mediated secretion, with vascular context. ","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0042775","count":1}]},{"hash":"535533154115813855","title":"Membrane Signaling and Immune Regulation","description":"The cluster centers on membrane-associated signaling processes (positive regulation of cell adhesion molecule production, cadherin-mediated adhesion, and membrane raft localization) together with immune and neuronal signaling (TLR3 signaling, IL-2 production, PKC signaling, and dopaminergic synaptic transmission). The presence of cardiolipin metabolism and mitochondrial DNA replication regulation hints at mitochondrial signaling contributing to these pathways, suggesting a broader coordination of signaling at membranes and organelles. Confidence: Medium","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":7},{"id":"GO:2000049","count":7},{"id":"GO:1903044","count":7},{"id":"GO:0052547","count":7},{"id":"GO:1900210","count":7}]},{"hash":"906263821008122658","title":"Proteostasis and Microtubule Assembly","description":"The cluster is dominated by proteostasis-related terms (protein folding, chaperone-mediated assembly, and ubiquitin-proteasome\u2013dependent quality control) combined with cytoskeleton-related terms (tubulin complex assembly and cortical microtubule organization), suggesting a link between protein homeostasis and microtubule dynamics; a few terms touch on nuclear processes and trafficking, but the core theme is proteostasis aligned with cytoskeletal assembly.","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0006457","count":2},{"id":"GO:0071629","count":2},{"id":"GO:0007021","count":2}]},{"hash":"806214264338212703","title":"Diverse Biosynthesis: amino acids, carbohydrates, lipids","description":"The GO terms show involvement in multiple biosynthetic and metabolic pathways, including amino acid synthesis (tryptophan, threonine), carbohydrate metabolism and salvage (carbohydrate phosphorylation, galactose/galacturonate processing, GDP-L-fucose salvage), and lipid/isoprenoid synthesis (mevalonate pathway, cholesterol biosynthesis). The lack of a single dominant process and no edges suggest the cluster captures a broad set of metabolic activities rather than a tightly co-regulated function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0046391","count":1},{"id":"GO:0000162","count":1},{"id":"GO:0009088","count":1},{"id":"GO:0042352","count":1}]},{"hash":"982988076090022157","title":"Transmembrane transporters for vitamins and sugars","description":"The GO terms cluster around transmembrane transport of small molecules such as vitamins, sugars, and xenobiotics (e.g., vitamin transmembrane transport, xenobiotic transmembrane transport, D-glucose and D-xylose transport, glucose import in response to insulin). While there is a stray aging-related term, the dominant pattern is membrane transport activity for nutrients and related compounds, so the proposed name reflects the shared function of this protein group.","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0042891","count":3},{"id":"GO:0006004","count":2},{"id":"GO:1904659","count":2}]},{"hash":"1475682119520779386","title":"Lipid and sterol biosynthesis","description":"The majority of GO terms point to lipid and sterol biosynthetic pathways\u2014cholesterol biosynthesis via lathosterol, fatty acid biosynthesis, and sphingolipid metabolism\u2014with additional related oxidation processes. A few outliers (sporulation, immune and nervous system terms) may reflect annotation noise, but the dominant theme across the cluster is lipid/sterol biosynthesis and related metabolism.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0035754","count":1}]},{"hash":"82458431755817270","title":"Neuronal calcium signaling and vesicle trafficking","description":"The cluster shows GO terms centered on calcium release and synaptic function (ryanodine receptor\u2013mediated Ca2+ release, SR Ca2+ release) along with membrane trafficking (receptor recycling, endosome size) and glutamatergic transmission, suggesting a cohesive role in Ca2+-dependent neurotransmission and associated vesicle trafficking. Some terms are broader or obsolete, but the core theme points to calcium signaling in neurons and synaptic vesicle dynamics.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0035249","count":2},{"id":"GO:0001881","count":2},{"id":"GO:0034968","count":2}]},{"hash":"1799011528786282409","title":"Triglyceride mobilization and phospholipid catabolism","description":"These proteins show strong enrichment for triglyceride catabolic processes, triglyceride mobilization, and triglyceride acyl-chain remodeling, as well as phosphatidylcholine and phosphatidylethanolamine catabolic processes, indicating a cohesive lipid catabolism and remodeling cluster. A secondary regulatory term (negative regulation of cAMP-dependent protein kinase activity) hints at signaling involvement, while a couple of incidental terms (e.g., cell budding) may be noise. ","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034638","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0006642","count":4},{"id":"GO:2000480","count":4},{"id":"GO:0036153","count":4}]},{"hash":"884854616503933835","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by ribosome-related processes: ribosome biogenesis, translation, cytoplasmic translation, and ribosomal subunit export from the nucleus, along with tRNA modification, indicating involvement in ribosome assembly and the protein synthesis machinery. Some terms about fertilization and MAPKKK activation appear as noise but do not override the core theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000747","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007338","count":2},{"id":"GO:0000185","count":2}]},{"hash":"1099436167084963248","title":"Retina and Photoreceptor Development","description":"The cluster is dominated by GO terms tied to visual perception and retina/photoreceptor differentiation in camera-type eyes, including visual perception, retina vasculature development in camera-type eye, and camera-type eye photoreceptor cell differentiation. While there are some ancillary terms related to general cell processing and signaling, the strongest signals consistently point to retinal development and photoreceptor biology, indicating these proteins likely function together in the visual system.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0061298","count":2},{"id":"GO:0045047","count":1},{"id":"GO:0006465","count":1},{"id":"GO:1900746","count":1}]},{"hash":"39705121865764302","title":"mRNA export and translation initiation","description":"The top terms converge on two related processes: export of mRNA from the nucleus and the initiation/reinitiation of translation. Terms include mRNA export, formation of the translation preinitiation complex, eIF4F complex assembly, translation reinitiation, and regulation of mRNA stability under stress. Although some terms are obsolete, the core signal is the coupling of mRNA processing/export with translation initiation machinery. This justifies a label reflecting both mRNA transport/processing and initiation of protein synthesis.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:1903586","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0001731","count":1}]},{"hash":"1146449334488341205","title":"Mitochondrial energy production and sterol metabolism","description":"The top GO terms cluster around ATP synthesis coupled electron transport and mitochondrial electron transport (NADH to ubiquinone), with accompanying sterol biosynthetic and sterol transport processes. A conflicting term related to photosynthesis appears, but the dominant pattern is energy production coupled to sterol metabolism/transport, suggesting a metabolism-focused cluster rather than a single, unified pathway.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042773","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0030004","count":1},{"id":"GO:0006810","count":1}]},{"hash":"21941575428530204","title":"Developmental transcription and differentiation regulation","description":"The GO terms cluster around DNA-templated transcription and developmental differentiation, including positive regulation of myoblast differentiation and vasculogenesis, and negative regulation of Notch signaling. This suggests a regulatory module governing muscle and vascular development through transcriptional control, with some obsolete hydroxylation terms and a general growth/antibiotic response that are less central but present. Overall, it points to developmental transcriptional regulation and differentiation control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0045663","count":1},{"id":"GO:0045746","count":1},{"id":"GO:2001214","count":1},{"id":"GO:0061428","count":1}]},{"hash":"2099003859809146381","title":"Synaptic vesicle trafficking and SNARE assembly","description":"The terms cluster around Golgi organization, ER-to-Golgi and intra-Golgi transport, SNARE complex formation, and synaptic vesicle docking/secretion, indicating a cohesive vesicle trafficking module in neurons and secretory pathways.","confidence":"High","size":7,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":3},{"id":"GO:0061669","count":2},{"id":"GO:1903422","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1904050","count":2}]},{"hash":"2051862314040264830","title":"Diverse metabolic biosynthesis and degradation","description":"The terms combine biosynthetic processes for several secondary metabolites (antibiotics, stilbene, strigolactone, poly-hydroxybutyrate) with catabolic/aromatic compound pathways (beta-ketoadipate, 3-phenylpropionate), plus broader metabolism terms (nitrogen utilization, phospholipid dephosphorylation). The set spans both synthesis and breakdown without a clear single shared function, suggesting a cluster of proteins involved in diverse metabolic processing rather than a unified pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0042952","count":2},{"id":"GO:0046272","count":2}]},{"hash":"2292697043722339178","title":"Developmental gene expression and vesicle transport","description":"The proteins in this cluster show GO terms spanning organismal development (brain, skin, multicellular development), transcription and mRNA transport, and vesicle trafficking (ER to Golgi). Although there are no edges connecting them, the common themes are development and underlying gene expression/transport processes, suggesting a broad developmental regulation role rather than a single tight pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0000278","count":3}]},{"hash":"73741505513314900","title":"Unknown","description":"The top GO terms are highly diverse, including sperm capacitation, placental development, cartilage condensation, neuron maturation regulation, IL-2 signaling, vitamin D3 metabolism, and centrosome duplication, with no clear shared function or pathway linking the proteins. This makes it difficult to assign a cohesive, interpretable label beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0017186","count":1},{"id":"GO:0001502","count":1},{"id":"GO:0014043","count":1}]},{"hash":"801122487877760446","title":"Mitochondrial membrane dynamics and amino acid transport","description":"The top terms cluster around mitochondria: membrane fission, permeability regulation, apoptotic mitochondrial changes, and transport functions (thiamine pyrophosphate, manganese), together with amino acid starvation response and glycine import, indicating a mitochondria-centered stress and transport theme.","confidence":"Medium","size":7,"edges":18,"triangles":22,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":5},{"id":"GO:0036233","count":5},{"id":"GO:0060546","count":5},{"id":"GO:0090149","count":5},{"id":"GO:0000002","count":5}]},{"hash":"844920944271884619","title":"Unknown","description":"The GO terms are heterogeneous, spanning bacterial flagellum assembly/motility, transcription termination, osteoblast differentiation, lipid metabolism, and various transport processes, with no single cohesive function tying the proteins together.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006353","count":2},{"id":"GO:0006626","count":1},{"id":"GO:0044780","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0015986","count":1}]},{"hash":"64926495853121895","title":"Cell division and cytokinesis machinery","description":"The top GO terms cluster strongly around cell division and cytokinesis (cell division, cell cycle, mitotic cytokinesis, division site positioning, FtsZ-dependent cytokinesis, spindle pole body duplication), suggesting these proteins function together in the machinery of division. Some peripheral terms (antibiotic response, translation regulation) are less central, but the dominant theme is division/cytokinesis components across bacteria and eukaryotes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0010738","count":2},{"id":"GO:1905789","count":1}]},{"hash":"293153138090809808","title":"Nuclear transcription and cell cycle regulation","description":"The terms are dominated by nuclear and cell-cycle related processes: DNA-templated transcription, DNA replication, mitotic cell cycle and sister chromatid separation, and regulation of protein export from the nucleus. There are also hints of development and protein interactions, with a couple of peripheral terms related to mitochondrial potential and ER-associated degradation. Taken together, the cluster seems to center on nuclear gene expression and chromosomal/mitotic control, with some ancillary functions.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010918","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0019233","count":2}]},{"hash":"697547185335067511","title":"Heat shock and protein quality control","description":"Top GO terms center on response to heat, detection of misfolded proteins, and chaperone-mediated protein folding, suggesting a heat-shock proteostasis module. Additional terms touch on telomerase RNA localization to Cajal bodies and protein translocation into host cytoplasm, which appear peripheral to the core heat/chaperone theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":6},{"id":"GO:0051086","count":6},{"id":"GO:0050729","count":6},{"id":"GO:1904874","count":6},{"id":"GO:0002236","count":6}]},{"hash":"626753876433803472","title":"Proteolysis and antigen processing","description":"The cluster shows several proteolysis-related terms (membrane protein proteolysis, protein catabolic process, protein autoprocessing, digestion) and antigen processing/presentation via MHC class II, suggesting a shared role in protein degradation and peptide generation for immune processing, with APP metabolism also linked to proteolytic processing. A few terms (xylan catabolic process, mesonephros development, response to cGMP) are less directly connected, but the dominant theme is proteolysis and peptide handling.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":1},{"id":"GO:0001823","count":1},{"id":"GO:0050435","count":1},{"id":"GO:0033619","count":1},{"id":"GO:0030163","count":1}]},{"hash":"133024198581743602","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050992","count":1},{"id":"GO:0006382","count":1},{"id":"GO:2000781","count":1},{"id":"GO:1901911","count":1},{"id":"GO:0046057","count":1}]},{"hash":"466671321472192440","title":"RNA processing and translation initiation control","description":"These terms cluster around mRNA maturation, export, and splicing, plus regulation of translation initiation and preinitiation complex formation, with a hint of ncRNA-mediated regulation\u2014together pointing to post-transcriptional gene expression control.","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0031047","count":3}]},{"hash":"1618217530829244994","title":"Actin filament assembly in muscle development","description":"The dominant terms focus on actin filament polymerization and muscle-specific assembly (cardiac thin filament assembly) with regulation of actin dynamics (barbed-end capping and positive regulation of polymerization) and smooth muscle cell migration, suggesting a cohesive theme of actin cytoskeleton remodeling in muscle development and related cell movement; peripheral terms like neuron development and cold response appear less central.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071691","count":1},{"id":"GO:0030838","count":1},{"id":"GO:0014911","count":1},{"id":"GO:0048666","count":1},{"id":"GO:0070417","count":1}]},{"hash":"957377569041495019","title":"Vacuolar amino acid transport","description":"The top GO terms describe transmembrane import of multiple amino acids (arginine, histidine, lysine, serine, glutamine, asparagine, glutamate) into the vacuole, suggesting a cohesive function in vacuolar amino acid transport and storage, with a coupling to nutrient/starvation responses.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090518","count":2},{"id":"GO:2000487","count":2},{"id":"GO:0089708","count":2},{"id":"GO:0090517","count":2},{"id":"GO:0051365","count":2}]},{"hash":"610754291128854219","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071257","count":1},{"id":"GO:0046040","count":1},{"id":"GO:0042594","count":1},{"id":"GO:0046086","count":1},{"id":"GO:0006531","count":1}]},{"hash":"1080708724799117282","title":"Ribosome biogenesis and translational initiation","description":"The dominant GO terms point to ribosome assembly and initiation of translation (ribosome biogenesis, formation of translation preinitiation complex, translation reinitiation, and positive regulation of translational initiation), with only a few ancillary terms (RNA Pol III transcription, splicing) that do not outweigh the main theme. This suggests the cluster centers on components of the translation machinery and its assembly.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0001172","count":1}]},{"hash":"1584943996405280902","title":"Spliceosome assembly and RNA processing","description":"The cluster shows strong representation of splicing and RNA maturation terms (spliceosomal complex assembly, spliceosomal snRNP assembly, mRNA cis splicing via spliceosome, tRNA processing, histone mRNA metabolic process, deadenylation-dependent decapping of nuclear-transcribed mRNA). These co-occur with broader RNA-processing activities, indicating a core theme of RNA maturation and spliceosome activity. The ABA- and water deprivation\u2013related terms suggest these RNA-processing functions may be engaged during stress responses, and a link to cell-cycle regulation is possible as well. Overall, the unifying function appears to be RNA processing/splicing.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":6},{"id":"GO:0008334","count":6},{"id":"GO:0008033","count":6},{"id":"GO:0042633","count":6},{"id":"GO:0009414","count":6}]},{"hash":"2075422947608215024","title":"Unknown","description":"The GO terms linked to these proteins are highly diverse, including intracellular transport and Golgi-associated trafficking, ribosome assembly, transcription regulation, meiosis-related DNA processes, and even neuronal signaling. Because there is no single unifying function common to all proteins in this small cluster, there isn\u2019t a coherent biological theme to name the cluster beyond Unknown.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006311","count":2},{"id":"GO:0006886","count":1},{"id":"GO:0042147","count":1},{"id":"GO:1990126","count":1},{"id":"GO:0045053","count":1}]},{"hash":"1515880624151376910","title":"Unknown","description":"The GO terms are highly diverse, spanning neural differentiation, organelle dynamics, apoptosis clearance, autophagy/reticulophagy, vesicle regulation, cell migration in angiogenesis, mitosis, and kinase signaling, with only one annotation per term and no edges connecting proteins. There is no clear, cohesive function that ties the cluster together, so a specific label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048714","count":1},{"id":"GO:0010821","count":1},{"id":"GO:0043652","count":1},{"id":"GO:0048664","count":1},{"id":"GO:0032889","count":1}]},{"hash":"535379420391520550","title":"Ubiquitin-Mediated Vesicle and Organelle Turnover","description":"The dominant signal is ubiquitination linked to intracellular membrane trafficking and organelle quality control (reticulophagy, vesicle size regulation, vacuole fusion). While a few terms touch on neural differentiation, the shared theme is ubiquitin-mediated regulation of vesicles and organelles.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0048714","count":2},{"id":"GO:0010821","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0048664","count":2}]},{"hash":"1736566110340906732","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":1},{"id":"GO:0009086","count":1},{"id":"GO:0006747","count":1},{"id":"GO:0009970","count":1},{"id":"GO:0010134","count":1}]},{"hash":"141389206372004161","title":"RNA Processing and Modification","description":"This cluster is characterized by GO terms tied to nuclear RNA handling, including spliceosome-related conformational changes, rRNA methylation and modification, and RNA export from the nucleus, indicating a shared role in RNA maturation and transport. While a few terms touch on other processes, the RNA-centric terms dominate, supporting this label.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000388","count":1},{"id":"GO:0010226","count":1},{"id":"GO:1901181","count":1},{"id":"GO:0019505","count":1},{"id":"GO:0031167","count":1}]},{"hash":"1499658250191503932","title":"Mitotic division and Golgi-ER vesicle trafficking","description":"This cluster centers on mitotic processes (mitotic spindle assembly, mitotic cell cycle, cell division) and vesicle trafficking between the ER and Golgi (COPII budding, ER-to-Golgi, Golgi-to-ER). The presence of brain development and multicellular growth terms suggests these proteins function in development where cell proliferation and secretory trafficking are coordinated. Taken together, the terms point to a cohesive theme of mitotic division linked with the secretory pathway in development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0000278","count":2}]},{"hash":"301047697373285792","title":"Epigenetic transcription and chromatin regulation","description":"The top GO terms cluster around chromatin state and transcription control: DNA-templated transcription, DNA methylation-dependent constitutive heterochromatin formation, and histone deacetylation. This points to epigenetic regulation of gene expression as the core function. Additional terms touching on protein ubiquitination regulation and mitophagy may reflect broader protein quality control links but don't override the dominant epigenetic theme.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006346","count":1},{"id":"GO:0031397","count":1},{"id":"GO:0070846","count":1},{"id":"GO:0045668","count":1}]},{"hash":"200343190299752609","title":"mRNA processing and translational regulation","description":"The cluster centers on mRNA export, splicing, stability, and translation initiation/reinitiation steps (preinitiation complex formation and EIF4F complex assembly), indicating a shared post-transcriptional regulatory theme.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:1903586","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0001731","count":2}]},{"hash":"651795480459944496","title":"Unknown","description":"The GO terms in this cluster describe unrelated processes (bacterial flagellum assembly/motility, osteoblast and endothelial cell migration, lipid metabolism, lysine homeostasis, and proton transport/ATP synthesis), indicating no cohesive single function. This mix suggests annotation noise or a heterogeneous cluster rather than a shared molecular function.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":1},{"id":"GO:0044780","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0071973","count":1},{"id":"GO:0006629","count":1}]},{"hash":"687777002084814087","title":"Mitochondrial translation and tRNA charging","description":"The top terms point to mitochondrial protein synthesis and tRNA aminoacylation (glycyl-, alanyl-, threonyl-, prolyl-), alongside translation and the electron transport chain, indicating a cohesive function in mitochondrial protein biosynthesis. A selenocysteine biosynthesis term appears but does not override the clear mitochondria-focused translation/tRNA charging signal.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016260","count":1},{"id":"GO:0022904","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0070143","count":1}]},{"hash":"144951057203987244","title":"Regulation of Signaling and Gene Expression","description":"The cluster includes multiple terms tied to regulation\u2014especially transcription by RNA polymerase II (both positive and negative) and regulation of various signaling and trafficking processes (potassium and calcium channels, GPCR internalization, vesicle formation). While core processes like translation and deglycosylation appear, the common thread appears to be regulatory roles that coordinate signaling with gene expression and trafficking. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006517","count":5},{"id":"GO:1902260","count":5},{"id":"GO:1905366","count":5},{"id":"GO:1901340","count":5},{"id":"GO:0006357","count":5}]},{"hash":"687651023746719219","title":"Lipid Biosynthesis and Mitochondrial Energetics","description":"The set includes GO terms for sterol and fatty acid biosynthesis (cholesterol, ergosterol, lathosterol, sphingolipid metabolism) and energy production (mitochondrial electron transport, ATP synthesis). A few terms touch on lipid-rich tissues and processes (myelin maintenance, sebaceous gland differentiation), which aligns with lipid membrane biology. Together they point to a cluster centered on lipid metabolism with mitochondrial energy support, hence the label.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006122","count":1},{"id":"GO:0042776","count":1},{"id":"GO:0035754","count":1},{"id":"GO:0080064","count":1},{"id":"GO:0032286","count":1}]},{"hash":"2074483333227829877","title":"Nucleolar ribosome biogenesis","description":"The terms point to ribosome biogenesis (assembly of the large subunit preribosome) and various nuclear RNA processing activities (splicing, rRNA catabolic processes, chromatin remodeling, and protein import), suggesting a core role in nucleolar ribosome assembly with broader nuclear gene-expression processing. Translation appears as a general related process but isn\u2019t the central theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0006311","count":1},{"id":"GO:1902626","count":1},{"id":"GO:2000616","count":1},{"id":"GO:0071035","count":1}]},{"hash":"69654156746355356","title":"Heat and ER Stress Translation Regulation","description":"The cluster repeatedly features terms tied to stress responses (heat response, negative regulation of heat response) and to control of protein synthesis specifically during ER stress (positive regulation of translation initiation in response to ER stress; translation initiation regulation). Additional terms about protein targeting to membranes and redox homeostasis support a theme of coordinating translation and protein targeting under cellular stress. Confidence in this theme is Moderate.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":2},{"id":"GO:0071374","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006260","count":2}]},{"hash":"722693383914012843","title":"Nuclear RNA Processing and Chromatin Remodeling","description":"The proteins show GO terms focused on nuclear processes: spliceosome dynamics (spliceosomal complex disassembly, positive regulation of mRNA splicing via spliceosome), chromatin remodeling, rRNA processing/degradation, ribosome biogenesis (large subunit preribosome assembly), and nuclear import. This suggests a cluster centered on nuclear gene expression control through RNA processing and chromatin state.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006311","count":1},{"id":"GO:1902626","count":1},{"id":"GO:2000616","count":1},{"id":"GO:0071035","count":1},{"id":"GO:0006306","count":1}]},{"hash":"1053772356973850373","title":"Ribosome biogenesis and translation fidelity","description":"This cluster is dominated by translation-related terms: translation itself, maturation of SSU-rRNA, tyrosyl-tRNA aminoacylation, and RNA modification like pseudouridine synthesis, all pointing to the ribosome and protein synthesis. Additional terms about translational fidelity (positive/maintenance) and regulation of initiation reinforce the core theme of translation machinery and accuracy, with a few transcription/antibiotic-response terms as peripheral context. Overall, a translation-ribosome function cluster best fits the data.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0046677","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0045903","count":1},{"id":"GO:0006437","count":1}]},{"hash":"1911848254517329219","title":"Translation initiation and ribosome regulation","description":"This cluster centers on translation processes: formation of the translation preinitiation complex, regulation of translation, translation reinitiation, IRES-dependent initiation, and maintaining translational fidelity, with accompanying ribosome disassembly; a few terms about X chromosome dosage compensation and cartilage development appear as outliers.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0002188","count":1},{"id":"GO:1990145","count":1}]},{"hash":"1545653554796240553","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":1},{"id":"GO:0006417","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0002188","count":1},{"id":"GO:1990145","count":1}]},{"hash":"1197731791089001913","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":1},{"id":"GO:0006122","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0034551","count":1},{"id":"GO:0071897","count":1}]},{"hash":"528005832086759501","title":"Organ and tissue development","description":"These terms converge on development and morphogenesis across several organs (retina, heart, kidney) and related cellular processes (cytoskeleton-dependent transport, cardiac conduction), suggesting a cluster centered on organogenesis and tissue maturation rather than a single specific pathway.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019749","count":2},{"id":"GO:1901841","count":2},{"id":"GO:0010842","count":2},{"id":"GO:0055003","count":2},{"id":"GO:0072286","count":2}]},{"hash":"1771379542836804172","title":"Unknown","description":"These five proteins are linked to a highly diverse set of GO terms spanning chromatin regulation, metabolism, development, and immune responses, with no single cohesive biological process tying them together. The terms include chromatin assembly and histone modification, regulation of respiration, growth and morphogenesis, and innate immune and antibacterial responses, indicating a lack of a unified function for this cluster.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043457","count":1},{"id":"GO:0033128","count":1},{"id":"GO:0006335","count":1},{"id":"GO:0090230","count":1},{"id":"GO:0035264","count":1}]},{"hash":"374649411416181922","title":"Actin remodeling and translation regulation","description":"The cluster centers on Arp2/3 complex\u2013mediated actin nucleation, and includes links to TORC1 signaling, translation reinitiation, heat-stress\u2013related mRNA export, and ER-to-Golgi transport, suggesting a coordinated module that ties cytoskeletal dynamics to protein synthesis and trafficking, with implications for growth and cell-cycle control.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034314","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0060770","count":1},{"id":"GO:0007064","count":1}]},{"hash":"1503697301811031565","title":"Actin Cytoskeleton Remodeling and Motility","description":"This cluster is driven by GO terms tied to actin dynamics\u2014filament severing, depolymerization, and regulation, plus lamellipodium morphogenesis and integrin-mediated signaling\u2014pointing to coordinated cytoskeletal remodeling and cell movement. A few terms touch on related signaling (calcium signaling, serine phosphorylation) or plant-specific processes (auxin transport), but the dominant theme is actin cytoskeleton remodeling and motility.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051014","count":1},{"id":"GO:0030042","count":1},{"id":"GO:2000012","count":1},{"id":"GO:2000394","count":1},{"id":"GO:0035585","count":1}]},{"hash":"575458489687633789","title":"Neuronal growth and signaling regulation","description":"The top GO terms emphasize neuronal processes: dendrite extension, calcium signaling, dense core granule exocytosis, and glucocorticoid-driven transcription. While a couple terms are more generic, the dominant theme is neuronal signaling linked to transcriptional regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903861","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0030579","count":1},{"id":"GO:2000146","count":1},{"id":"GO:0032465","count":1}]},{"hash":"1498415700443101978","title":"Unknown","description":"The GO terms are highly diverse (phytochelatin biosynthesis, autophagy regulation, proteolysis, and various antibiotic/industrial degradation processes) with no clear shared function. This cluster does not reflect a single biological theme, so a specific label cannot be confidently assigned.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046938","count":2},{"id":"GO:1904715","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0043085","count":2},{"id":"GO:0030655","count":1}]},{"hash":"762962339028171303","title":"Neural development and ER-Golgi transport","description":"The cluster shows strong representation of neural development terms (neuron remodeling, neural tube patterning, glutamate receptor signaling, embryonic digit morphogenesis) and secretory pathway processes (ER to Golgi vesicle transport, Golgi localization). This combination suggests the proteins may participate in neuronal development with roles in secretory trafficking, rather than a single pathway. Some terms (liver development, blue light signaling, mitochondrial fission, ER stress) may reflect broader cellular roles or annotation overlap, but the shared theme centers on neural development and secretory trafficking.","confidence":"Medium","size":4,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016322","count":4},{"id":"GO:0021532","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0007215","count":4},{"id":"GO:0000042","count":4}]},{"hash":"2021313520534850586","title":"Unknown","description":"The terms span diverse processes (DNA maintenance, proteolysis, mitochondrial RNA modification, various metabolism and development) with no clear common function or pathway tying the four proteins together, and several terms are obsolete, so no coherent cluster function can be inferred.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009086","count":2},{"id":"GO:0000722","count":1},{"id":"GO:0046944","count":1},{"id":"GO:0072670","count":1},{"id":"GO:0006508","count":1}]},{"hash":"1269644462651167783","title":"Protein Folding and Targeting","description":"The Top Terms center on folding/refolding and targeting/maturation of proteins (unfolded protein response, chaperone-dependent refolding, SRP-mediated targeting to membranes, iron-sulfur cluster assembly). The presence of stress and apoptosis-related terms suggests this cluster reflects a broader protein quality-control context, rather than a single pathway, supporting a label of protein folding and targeting.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070389","count":1},{"id":"GO:0006880","count":1},{"id":"GO:1900035","count":1},{"id":"GO:1903751","count":1},{"id":"GO:1902037","count":1}]},{"hash":"95434467119929307","title":"Nuclear RNA processing and ribosome biogenesis","description":"Most terms describe nuclear RNA processing (splicing via spliceosome and spliceosomal complex disassembly) and ribosome biogenesis (assembly of large subunit precursor of preribosome). The additional signals for chromatin remodeling and protein import suggest these proteins function in the nucleus to coordinate gene expression and ribosome production, reinforcing a cohesive theme around RNA processing and ribosome assembly with some chromatin regulation. Therefore, the label Nuclear RNA processing and ribosome biogenesis is appropriate.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0006311","count":2},{"id":"GO:1902626","count":2},{"id":"GO:2000616","count":2},{"id":"GO:0071035","count":2}]},{"hash":"1914839207851338380","title":"Nucleotide Metabolism and DNA Replication","description":"Most GO terms cluster around nucleotide biosynthesis and interconversion (AMP salvage, ADP and CDP biosynthesis, purine ribonucleotide interconversion, ITP metabolism, nucleoside monophosphate phosphorylation), with DNA replication also represented, suggesting proteins involved in nucleotide metabolism linked to DNA synthesis. Tissue-development terms (liver, brain) may reflect context rather than core function. ","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0046939","count":3}]},{"hash":"236051849203170393","title":"Nuclear DNA Replication and RNA Processing","description":"The top GO terms are dominated by DNA replication (replication, unwinding, primer synthesis) with accompanying nuclear RNA-processing activities (spliceosome disassembly, preribosome assembly, rRNA catabolic process) and chromatin regulation notes, suggesting a nucleus-centered cluster where DNA replication machinery coexists with RNA processing and ribosome biogenesis pathways.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0006269","count":4},{"id":"GO:0006311","count":3},{"id":"GO:1902626","count":3}]},{"hash":"778165753834367852","title":"Embryonic organ morphogenesis","description":"The dominant GO terms point to morphogenesis across multiple organs (inner ear, nose, neural tube, heart, pancreas) and neural crest development, indicating a shared theme of embryonic organ formation and tissue patterning. Some catabolic terms appear as outliers, but the core signal supports a developmental morphogenesis function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042472","count":4},{"id":"GO:0043584","count":4},{"id":"GO:0021915","count":4},{"id":"GO:0019545","count":4},{"id":"GO:0003007","count":4}]},{"hash":"2277083118738372173","title":"Microtubule-based transport and spindle dynamics","description":"These GO terms cluster around microtubule cytoskeleton organization and dynamics, including polarity establishment, minus-end directed sliding, spindle/kinetochore orientation, and chromosome alignment, as well as MT-dependent transport processes (dendritic transport and vesicle trafficking). This points to a coherent theme of microtubule-based structure and movement linking the proteins\u2019 functions.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032511","count":1},{"id":"GO:0000915","count":1},{"id":"GO:0036334","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0030951","count":1}]},{"hash":"2040558285625734456","title":"Unknown","description":"The two top GO terms do not point to a shared function or pathway for these four proteins; translation fidelity regulation and L-asparagine catabolism appear unrelated, so a cohesive label cannot be assigned.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":1},{"id":"GO:0006530","count":1}]},{"hash":"823622511386335528","title":"Bone remodeling and matrix turnover","description":"This cluster centers on processes of bone formation and breakdown: intramembranous ossification, bone resorption, and collagen catabolic activity, indicating remodeling of the bone matrix. There are also related peptide catabolic processes and immune-related activities (macrophage apoptosis, T cell cytotoxicity) that can intersect with bone remodeling (osteommunology), suggesting these proteins function in a remodeling context rather than a single signaling pathway. Overall, the dominant theme is bone matrix turnover and remodeling.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":1},{"id":"GO:0010815","count":1},{"id":"GO:0001913","count":1},{"id":"GO:0030574","count":1},{"id":"GO:0050790","count":1}]},{"hash":"1275851845960186169","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0042255","count":3},{"id":"GO:0090394","count":3}]},{"hash":"931148495924530479","title":"Large subunit ribosome biogenesis and rRNA maturation","description":"The GO terms consistently point to maturation and assembly of the large ribosomal subunit (LSU rRNA processing, 5.8S rRNA maturation), preribosome assembly, and export of the LSU from the nucleus, indicating a cohesive theme of LSU ribosome biogenesis. A few DNA replication terms appear incidental noise.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0000463","count":1},{"id":"GO:1902626","count":1}]},{"hash":"672459244006667935","title":"RNA processing and splicing","description":"The cluster is dominated by GO terms for RNA maturation and processing, including mRNA splicing via the spliceosome, spliceosomal snRNP and complex assembly, and deadenylation-dependent decapping of nuclear-transcribed mRNA, along with tRNA processing and histone mRNA metabolism. These converge on core RNA processing pathways. Some terms relate to stress responses (abscisic acid, water deprivation) that can co-occur with RNA processing in plants, but the prevailing signal is RNA maturation and processing. Confidence: Medium","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":2},{"id":"GO:0008334","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0042633","count":1},{"id":"GO:0009414","count":1}]},{"hash":"890560852570351063","title":"Unknown","description":"The GO terms are a scattered mix of DNA replication (nuclear and mitochondrial), mRNA export, SNARE complex disassembly, protein hexamerization, ATP metabolism, and nonfunctional rRNA decay, with no clear shared pathway or function connecting all four proteins. This diversity indicates there isn\u2019t a single cohesive biological role for this cluster.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0030420","count":1},{"id":"GO:0035494","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0090305","count":1}]},{"hash":"891741102165077475","title":"Innate bacterial defense and xenobiotic response","description":"These terms cluster around innate immune actions against bacteria and foreign compounds, with multiple entries for defense against bacteria, lipopolysaccharide response, and xenobiotic response. While other terms (e.g., transcription regulation, energy metabolism) are present, the dominant signals point to bacterial defense and xenobiotic handling as the core theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0042742","count":2}]},{"hash":"1004508646673382214","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":2},{"id":"GO:0009236","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0019354","count":1},{"id":"GO:0017183","count":1}]},{"hash":"1691959583743185583","title":"Developmental Signaling and Differentiation","description":"The top GO terms converge on tissue differentiation and growth regulation (keratinocyte differentiation, cartilage condensation, neuronal maturation) and key signaling pathways (Hippo, canonical Wnt). Additional terms for apoptotic regulation, immune signaling, and vitamin D metabolism point to broader developmental and regulatory roles across tissues, rather than a single process. This supports a label centered on developmental signaling and differentiation.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030216","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0035329","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0060044","count":4}]},{"hash":"303109088585663515","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0071166","count":1},{"id":"GO:0000480","count":1}]},{"hash":"978017012787202268","title":"Unknown","description":"The proteins in this cluster map to a highly diverse set of GO terms (response to folic acid, xenobiotic stimulus, estradiol, light response, heart development, apoptosis regulation, aging, and nucleotide-excision repair) with no clear, shared biological process or function. The minimal connectivity (one edge, no triangles) supports a lack of a cohesive theme, so there isn\u2019t a defensible, specific label beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051593","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0003313","count":1},{"id":"GO:0042493","count":1}]},{"hash":"651346524777978344","title":"Unknown","description":"The top terms span neural development (oligodendrocyte differentiation, neuron fate determination) and broad cellular processes (organelle organization, autophagy/reticulophagy, vesicle regulation, apoptosis clearance, iron transport, cell division, and migration). The cluster lacks a single cohesive function or pathway, making a specific, concise label inappropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048714","count":2},{"id":"GO:0098707","count":2},{"id":"GO:0010821","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0048664","count":2}]},{"hash":"1136373258111182360","title":"Unknown","description":"The top GO terms are highly diverse, spanning hormone synthesis and endocrine development, bone and cuticle processes, stress responses, and general gene expression, with no clear shared function or interaction pattern among the four proteins (no edges/triangles). This lack of coherent functional theme makes a specific, representative label untenable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0003081","count":1},{"id":"GO:0006590","count":1},{"id":"GO:0045726","count":1},{"id":"GO:0010467","count":1}]},{"hash":"672101673317179048","title":"Unknown","description":"The GO terms are highly diverse, including bioluminescence, visual perception, calcium release regulation, cell budding, cytokinesis regulation, guanylate cyclase activity regulation, dephosphorylation, monoubiquitination, transcription regulation, and exocytosis, with no clear shared function among the proteins. The small size and sparse connectivity (4 proteins, 2 edges, no triangles) also suggest no coherent theme linking the proteins, supporting an Unknown label.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008218","count":1},{"id":"GO:0010880","count":1},{"id":"GO:0007114","count":1},{"id":"GO:0032465","count":1},{"id":"GO:0031284","count":1}]},{"hash":"1814064266119240673","title":"RNA pseudouridine synthesis across RNAs","description":"All three top terms refer to pseudouridine synthesis in different RNA types (snRNA, tRNA, mRNA), suggesting a shared RNA modification role. The proteins likely participate in RNA pseudouridylation, indicating a coherent functional cluster.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031120","count":1},{"id":"GO:0031119","count":1},{"id":"GO:1990481","count":1}]},{"hash":"1913539641251512508","title":"Unknown","description":"No GO terms or common function signals are listed for this cluster, so no specific theme can be inferred from the data. The proteins appear unannotated with respect to shared biological roles.","confidence":"","size":4,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1856487619428241968","title":"Unknown","description":"The top GO terms cover a broad and disparate set of processes (cell-cycle-related functions, stress responses, transcription and translation, vesicle trafficking, aging, apoptosis). There is no clear, single unifying theme tying these terms together, so a specific functional label isn\u2019t justifiable beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060770","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0007568","count":1},{"id":"GO:2000728","count":1},{"id":"GO:0002188","count":1}]},{"hash":"784996830026072378","title":"Calcium-Regulated Exocytosis","description":"The strongest connections among the terms are calcium-dependent exocytosis events, including positive regulation of dense core granule exocytosis and calcium ion\u2013regulated lysosome exocytosis, suggesting a secretory/vesicle trafficking focus. While other terms touch on lipid metabolism and signaling, these exocytosis-related GO terms provide a coherent, concise theme for the cluster. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":2},{"id":"GO:0030579","count":1},{"id":"GO:0001324","count":1},{"id":"GO:1905415","count":1},{"id":"GO:1990927","count":1}]},{"hash":"1899420969681969940","title":"Chromatin-associated methylation","description":"This cluster is enriched for methylation-related GO terms (protein and RNA methylation, lysine methylation) and a chromatin-related term (rDNA heterochromatin formation), pointing to a role in methylation-driven chromatin regulation. The presence of DNA-binding regulation aligns with chromatin control.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0018013","count":2},{"id":"GO:0031167","count":1},{"id":"GO:0018027","count":1},{"id":"GO:0000183","count":1},{"id":"GO:0018023","count":1}]},{"hash":"2001216857371452013","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":1},{"id":"GO:0019647","count":1},{"id":"GO:0052704","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0034219","count":1}]},{"hash":"359266052955471587","title":"Unknown","description":"The GO terms span a broad and disparate set of processes (nitric oxide biosynthesis, central nervous system myelin maintenance, nitrate assimilation, regulation of ergosterol biosynthesis, sphingolipid metabolism, sebaceous gland differentiation, mitochondrial inheritance, and unsaturated fatty acid biosynthesis). With no protein-protein edges and no clear shared pathway, there isn\u2019t a single coherent function that defines this cluster, so a specific label cannot be confidently assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0032443","count":3},{"id":"GO:0006675","count":3}]},{"hash":"108505583783808930","title":"Diverse biosynthetic and metabolic processes","description":"This cluster's top GO terms span multiple biosynthetic and metabolic pathways\u2014tRNA modification, hydrogen sulfide and cholesterol synthesis, nucleotide biosynthesis, flavonoid metabolism, and related regulatory processes. There isn't a single cohesive function, but the common thread is core metabolism and biosynthesis across various substrates. Therefore, the label reflects a broad metabolic theme rather than a specific pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002949","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0032332","count":1}]},{"hash":"1121676211137153436","title":"Mitotic Cell Division","description":"The top GO terms point to mitotic cell cycle, APC/C-dependent catabolic process, and metaphase/anaphase transition, indicating a cohesive mitosis-related cluster. Some terms reflect stress responses or iron-sulfur assembly, but the dominant signal is cell division machinery.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:2001162","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1189193562165395253","title":"Nucleic Acid Metabolism and Transport","description":"The GO terms indicate DNA replication, RNA export, and rRNA decay, with additional vesicle trafficking (SNARE disassembly, ER\u2013Golgi transport) and protein assembly. This points to a broader theme of nucleic acid processing coupled with intracellular transport.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030420","count":1},{"id":"GO:0035494","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0034214","count":1}]},{"hash":"831799313941653938","title":"mRNA processing and translation initiation","description":"This cluster shows strong representation of GO terms for mRNA export from the nucleus, translation initiation and reinitiation, and assembly of the translation initiation machinery, as well as related mRNA stability and splicing-related processes. The common theme is coordination of mRNA maturation/export with control of translation initiation, justifying this label.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":1},{"id":"GO:1903586","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0001731","count":1}]},{"hash":"694340759525273135","title":"Chromatin modification and transcription regulation","description":"The proteins in this cluster mainly tie to epigenetic control and transcription, highlighted by DNA methylation-dependent heterochromatin formation and histone deacetylation, along with DNA-templated transcription. While there are notes on proteostasis and mitophagy, the strongest signal is chromatin remodeling and transcriptional regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006346","count":1},{"id":"GO:0031397","count":1},{"id":"GO:0070846","count":1},{"id":"GO:0045668","count":1},{"id":"GO:0070933","count":1}]},{"hash":"416045370782319499","title":"Unknown","description":"GO terms span diverse functions (protein folding, development, signaling, immune processes, neuronal vesicle trafficking, and more) with no clear, cohesive theme across the three proteins; thus there is no confident, representative label.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":1},{"id":"GO:0048916","count":1},{"id":"GO:0048387","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0002502","count":1}]},{"hash":"1409385118009607058","title":"Teichoic acid and cell wall biosynthesis","description":"This cluster is characterized by GO terms centered on teichoic acid and lipoteichoic acid biosynthesis, teichoic acid D-alanylation, and cell wall organization, pointing to a common theme of Gram-positive bacterial cell envelope assembly and modification. Additional terms related to lipid and fatty acid biosynthesis align with envelope lipid metabolism, reinforcing the cell wall biosynthesis interpretation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902987","count":1},{"id":"GO:0019878","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0009258","count":1},{"id":"GO:0006633","count":1}]},{"hash":"778474385880741799","title":"Unknown","description":"The GO terms are broad and span skin differentiation, several developmental signaling pathways (Hippo, Wnt), skeletal/cartilage development, immune signaling, and metabolism, with no single unifying function tying all proteins together. The lack of cohesive biology and the absence of edges support labeling as Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0035329","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0060044","count":2}]},{"hash":"793811376697444854","title":"Unknown","description":"Top terms cover neural differentiation, mitochondrial organization, autophagy, vesicle regulation, and kinase activity, with no single shared function linking the three proteins. The lack of a clear common theme and absence of interactions prevents a confident, representative label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048714","count":1},{"id":"GO:0010821","count":1},{"id":"GO:0043652","count":1},{"id":"GO:0048664","count":1},{"id":"GO:0032889","count":1}]},{"hash":"1395181105426402502","title":"ER Stress and Redox Homeostasis","description":"This cluster\u2019s GO terms cluster around detoxifying oxidants, redox balance, and protein handling in the endoplasmic reticulum, including ER stress response and ER protein folding. A few terms touch transcriptional regulation, but the dominant theme is ER-associated redox homeostasis and protein folding, justifying the label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0080058","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0006662","count":1},{"id":"GO:0045454","count":1}]},{"hash":"356133676343968997","title":"Organelle dynamics and cell remodeling","description":"This cluster\u2019s GO terms span organelle organization and turnover (mitochondrion, vacuole, reticulophagy), membrane/vesicle regulation (vesicle size), autophagy-related processes (engulfment of apoptotic cells), and cell division signaling (protein kinase activity, cleavage furrow ingression), plus neuronal differentiation hints. The common thread appears to be general cellular remodeling and organelle/homeostasis rather than a single specific pathway, justifying a broad label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048714","count":1},{"id":"GO:0010821","count":1},{"id":"GO:0043652","count":1},{"id":"GO:0048664","count":1},{"id":"GO:0032889","count":1}]},{"hash":"449723261700445032","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006179","count":1},{"id":"GO:0034356","count":1},{"id":"GO:0006190","count":1},{"id":"GO:0006152","count":1},{"id":"GO:0006206","count":1}]},{"hash":"520786415451320839","title":"N-terminal and polyamine acetylation","description":"The GO terms center on acetylation events, especially N-terminal protein acetylation (N-terminal peptidyl-methionine/glutamic acid, peptidyl-lysine N6-acetylation) and polyamine acetylation (putrescine, spermidine, spermine) plus related acetylation metabolism (histone acetylation, N-acetylglucosamine metabolism). This points to a cohesive theme of acetylation chemistry across proteins and small molecules.  ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017196","count":3},{"id":"GO:0006044","count":3},{"id":"GO:0010125","count":3},{"id":"GO:0018003","count":3},{"id":"GO:0032918","count":3}]},{"hash":"869824748623381408","title":"Cyanobacterial Sporulation and Heterocyst Development","description":"The top GO terms center on sporulation and heterocyst development, plus nitrogen utilization regulation, which are key features of cyanobacterial differentiation under nutrient limitation. Supporting terms for stimulus detection, chemotaxis, and transcription suggest environmental sensing and gene regulation feeding into these developmental pathways, placing the proteins in a signaling/differentiation cluster. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051606","count":1},{"id":"GO:0009736","count":1},{"id":"GO:0042173","count":1},{"id":"GO:0080117","count":1},{"id":"GO:0018393","count":1}]},{"hash":"1496924785652338103","title":"Cholesterol biosynthesis and Hedgehog signaling regulation","description":"The cluster is dominated by GO terms for cholesterol biosynthetic and metabolic processes, and for negative regulation of the Smoothened/Hedgehog signaling pathway, which are biologically connected since cholesterol and sterol processing modulate Hedgehog signaling. The presence of development-related terms (kidney, spinal cord neuron differentiation) suggests sterol-associated developmental regulation, supporting a cohesive theme around sterol metabolism influencing developmental signaling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045879","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0061005","count":1},{"id":"GO:0060037","count":1},{"id":"GO:0040015","count":1}]}]