[{"hash":"298699694692009981","title":"Lymphocyte signaling and migration","description":"These proteins are enriched for immune-related processes (hemopoiesis, B cell affinity maturation, interleukin-7 response) and signaling pathways (PI3K/AKT, small GTPase\u2013mediated signaling) together with cell migration, suggesting a theme of immune cell signaling and movement rather than a single metabolic function. Obsolete glucose import term can be ignored in this context.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0043491","count":4},{"id":"GO:0046329","count":4},{"id":"GO:0030097","count":4}]},{"hash":"850267000204061411","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The cluster is enriched for ubiquitin-mediated degradation terms (ubiquitin-dependent protein catabolic process, ERAD, protein autoubiquitination), suggesting a core theme around proteostasis. The co-occurrence of signaling-related GO terms (integrin-mediated signaling, regulation of JNK cascade, TNF signaling) and broader regulatory processes (vitamin D response, mRNA processing, telomere maintenance, X-chromosome dosage compensation) implies these proteins integrate degradation with signaling and transcriptional/chromatin regulation. Overall, a proteostasis-and-signaling coordination theme best captures the shared function of this cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0007229","count":4},{"id":"GO:0006397","count":4}]},{"hash":"409351902453476640","title":"Neuronal development and Wnt signaling","description":"The top GO terms emphasize nervous system development and dendrite morphogenesis, with a clear signal for positive regulation of canonical Wnt signaling and transcriptional control. Although several terms relate to general cell cycle processes, the most specific and recurrent themes are neural development and Wnt-mediated signaling, suggesting this cluster centers on neuronal differentiation/morphogenesis coordinated by Wnt pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0048813","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1208294571825749145","title":"Multicellular Development and Proteostasis","description":"Top terms show a blend of multicellular development (stamen formation, skin development, cartilage morphogenesis, and general development) and protein turnover/proteostasis (ubiquitin-dependent proteolysis, proteasome assembly, protein heterotrimerization, and mitotic cell cycle). This suggests a coherent theme around tissue growth and differentiation coupled with protein homeostasis, despite some plant-specific processes like chlorophyll biosynthesis appearing among the terms.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":6},{"id":"GO:0015995","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0043248","count":5},{"id":"GO:0048455","count":5}]},{"hash":"608406238806734931","title":"Host-associated stress and symbiont dormancy response","description":"The top GO terms are dominated by stress response and dormancy entry of symbiont in host, both at high counts, suggesting proteins involved in managing stress within a host-associated symbiotic context. Other terms ( xenobiotic response, plant hormone signaling, and miscellaneous metabolic processes) appear less central, pointing to a core theme of host-related stress adaptation with symbiont dormancy as a primary driver, rather than a single cohesive pathway.","confidence":"Medium","size":29,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":11},{"id":"GO:0085014","count":11},{"id":"GO:0042493","count":4},{"id":"GO:0009740","count":3},{"id":"GO:0046340","count":2}]},{"hash":"234194307582297923","title":"Telomere maintenance and telomeric localization","description":"The cluster is dominated by telomere-related processes: positive/negative regulation of telomere maintenance via telomerase, telomere capping, and localization to the telomeric region, along with ADP-ribosylation\u2013related modification enzymes and spindle assembly. A few terms (Wnt signaling, pain perception) are outliers, but the core signal is telomere biology.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":5},{"id":"GO:0016055","count":4},{"id":"GO:0070213","count":4},{"id":"GO:1904355","count":4},{"id":"GO:0070212","count":4}]},{"hash":"1814542295614416646","title":"Mitotic cell cycle and chromatin regulation","description":"These proteins cluster around cell cycle progression and mitosis, with supporting hints from DNA-templated transcription, mRNA processing, and chromatin deubiquitination. The presence of microtubule nucleation and spindle pole body duplication further emphasizes a mitotic role, suggesting they coordinate transcriptional control with chromosome segregation and chromatin state during division.","confidence":"Medium","size":29,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007049","count":5},{"id":"GO:0035335","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0070537","count":4}]},{"hash":"894003747830205638","title":"Unknown","description":"This cluster\u2019s top GO terms span diverse processes including lipid catabolism (triglyceride, monoacylglycerol, phosphatidylserine), biosynthesis (antibiotic, biotin), and broad regulatory functions (cell cycle, transcription, rRNA modification, xenobiotic response, endocannabinoid signaling). The terms don\u2019t converge on a single clear function or pathway, indicating no cohesive theme across all proteins. Unknown is the most appropriate label in this case.","confidence":"","size":29,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0019433","count":6},{"id":"GO:0000082","count":6},{"id":"GO:0052651","count":5},{"id":"GO:2000124","count":5}]},{"hash":"1515926974720111607","title":"Ribosome biogenesis and translation","description":"The top GO terms revolve around translation and ribosome-related processes (translation, cytoplasmic translation, translational initiation, ribosomal subunit export from nucleus, ribosomal subunit biogenesis), indicating a cohesive theme centered on ribosome assembly and protein synthesis. Some cell-cycle related terms appear but do not override the primary translation-centric signal.","confidence":"High","size":29,"edges":93,"triangles":162,"max_degree":17,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0051301","count":8},{"id":"GO:0007049","count":8},{"id":"GO:0002181","count":7},{"id":"GO:0000055","count":6}]},{"hash":"167972477721673569","title":"RNA and protein methyltransferases","description":"These proteins are dominated by GO terms for RNA methylation (rRNA and tRNA, including wobble base modification) and various peptide methylations (lysine, arginine) as well as histone methylation, indicating a coherent set of methyltransferase enzymes acting on both RNA and protein substrates. Some auxiliary terms (cobalamin biosynthesis, nodulation) appear less related, but the core signal is clearly methyltransferase activity across RNA and chromatin-related proteins.","confidence":"High","size":29,"edges":118,"triangles":246,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031167","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0002098","count":6},{"id":"GO:0030488","count":6},{"id":"GO:0009236","count":6}]},{"hash":"393698431474931590","title":"Ubiquitin-Proteasome Regulation of Stress and Cell Cycle","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal ubiquitin-dependent degradation and protein polyubiquitination, which point to a core ubiquitin-proteasome system. Additional terms related to cell-cycle control (mitotic G1 DNA damage checkpoint signaling, regulation of DNA replication initiation) and circadian rhythm regulation suggest broader regulatory roles for UPS in coordinating stress responses and timing. The presence of neuronal stress and metal-response terms indicates the cluster\u2019s involvement in stress signaling, potentially via ubiquitin-mediated turnover of key regulatory proteins. Overall, the cluster appears to reflect ubiquitin-proteasome\u2013driven regulation of stress responses and cell-cycle processes, with connections to circadian and neuronal pathways.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0031146","count":15},{"id":"GO:1903378","count":15},{"id":"GO:0071406","count":14},{"id":"GO:0071276","count":14}]},{"hash":"899514524006364433","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The top GO terms are dominated by ubiquitination and SCF-dependent proteasomal ubiquitin\u2011dependent protein catabolic processes, pointing to a core cluster function in tagging and degrading proteins. This is complemented by links to cell-cycle regulation and immune/signaling pathways, suggesting proteostasis-based control of signaling and cell-cycle transitions. Some terms (e.g., responses to mechanical stimuli) appear as outliers, but they do not overshadow the central ubiquitin\u2013proteasome theme. Overall, the label reflects the primary function represented by the cluster.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":10},{"id":"GO:0000083","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0050966","count":8},{"id":"GO:0032088","count":8}]},{"hash":"1242384835581328025","title":"Transcriptional regulation and chromatin modification","description":"Top GO terms indicate transcriptional control (DNA-templated transcription and its regulation), RNA processing/modification (guanine-N7 methylation), and protein chromatin-related modifications (peptidyl-lysine acetylation), with accompanying cell-cycle and sporulation signals and some xenobiotic response. This pattern suggests a nucleus-centered program that coordinates gene expression and chromatin state, with links to stress responses. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0070262","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030435","count":3}]},{"hash":"1620808492419360359","title":"Neuronal development and synaptic signaling","description":"Based on top GO terms, the cluster is enriched for neuronal development and synaptic activity, including axonogenesis, dendritic spine morphogenesis, trans-synaptic signaling, and axon fasciculation, suggesting a common theme around neural connectivity and communication. While other terms (DNA replication, ER-Golgi transport, telomere maintenance, ABA signaling) reflect general cellular processes, the neural terms are most characteristic of this set.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0006888","count":5},{"id":"GO:0021952","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0032212","count":4}]},{"hash":"1966975130445208560","title":"Circadian regulation and ubiquitin-mediated proteolysis","description":"Top GO terms show strong enrichment for ubiquitin-dependent protein degradation (SCF-mediated and polyubiquitination) and regulation of circadian rhythm, pointing to a cluster centered on timed protein turnover. The metal-stress responses and cell-cycle-related terms likely reflect context-specific regulation by ubiquitination in response to stress, but the core theme is circadian-linked proteolysis.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031146","count":23},{"id":"GO:0042752","count":20},{"id":"GO:0071406","count":20},{"id":"GO:0046685","count":20},{"id":"GO:0071276","count":20}]},{"hash":"140767413594689060","title":"Vitamin and antibiotic biosynthesis and RNA methylation","description":"The proteins show enrichment for diverse biosynthetic processes (antibiotic biosynthesis, cobalamin, biotin, menaquinone biosynthesis) as well as RNA methylation (tRNA and rRNA). This points to a cluster of proteins involved in multiple biosynthetic pathways and RNA modification, rather than a single cohesive pathway, so a label that captures both biosynthesis and RNA modification is appropriate.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0030488","count":5},{"id":"GO:0070476","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0009102","count":5}]},{"hash":"980420440800501228","title":"Developmental transcription and genome maintenance","description":"This cluster shows enrichment in DNA-templated transcription, mitotic cell cycle, and DNA repair via homologous recombination, coupled with developmental processes like multicellular and forebrain development. Additional terms point to broader gene regulation and stress responses, suggesting a group of proteins involved in regulating development while preserving genome integrity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0030517","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0007275","count":3}]},{"hash":"662726085180340415","title":"Wnt signaling with cilium and cytoskeleton assembly","description":"The cluster is dominated by GO terms linking signaling (Wnt pathway) with structural/cellular architecture: cilium assembly, actin filament bundle assembly, and focal adhesion assembly, suggesting coordination of signaling with ciliogenesis and cytoskeletal dynamics. Additional terms point to related processes like endocytosis and protein PARylation, but the core theme centers on Wnt signaling in conjunction with cili-skeletal organization rather than a single isolated pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0009637","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0048041","count":2}]},{"hash":"1953114857683848159","title":"Growth factor signaling and cell cycle control","description":"Enrichment for EGFR response, PI3K/AKT signaling, cell cycle, migration, and mechanotransduction suggests a cohesive theme of growth-factor\u2013driven signaling coordinating proliferation, size control, and motility.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045792","count":3},{"id":"GO:0071364","count":3},{"id":"GO:0007205","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0016477","count":3}]},{"hash":"1050596620109893433","title":"Growth Factor Signaling and Angiogenesis","description":"This cluster centers on signaling pathways linked to cell proliferation, immune activation, and vascular remodeling. Top GO terms include regulation of the cell cycle, activated T cell proliferation, blood vessel morphogenesis, response to PDGF, ephrin receptor signaling, and MAPK/JSK signaling, all pointing to growth factor\u2013driven signaling networks that coordinate proliferation, migration, and angiogenesis. Confidence: Medium","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":2},{"id":"GO:0050798","count":2},{"id":"GO:0048514","count":2},{"id":"GO:0036120","count":2},{"id":"GO:0001953","count":2}]},{"hash":"1320678879443916735","title":"T cell signaling and cytoskeletal remodeling","description":"The top GO terms cluster around T cell receptor signaling, ERK/MAPK cascade activation, focal adhesion regulation, and actin cytoskeleton reorganization, with supporting notes on ephrin signaling and immune-related degranulation. This points to a cohesive theme of immune cell signaling coupled to cytoskeletal dynamics and adhesion, rather than separate or unrelated processes.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0051893","count":14},{"id":"GO:0048013","count":14},{"id":"GO:0043552","count":14}]},{"hash":"896089359822492631","title":"Neuronal development and MAPK signaling","description":"This cluster is dominated by nervous system development, hippocampus development, dendrite morphogenesis, and synaptic signaling terms, with strong links to ERK/JNK/MAPK cascades, suggesting a cohesive role in neuronal development and MAPK-regulated synaptic activity.","confidence":"High","size":28,"edges":73,"triangles":82,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":18},{"id":"GO:0007399","count":16},{"id":"GO:0046330","count":15},{"id":"GO:0031647","count":15},{"id":"GO:0021766","count":15}]},{"hash":"1169375643466381843","title":"Mitochondrial Transport and Metabolic Regulation","description":"The terms point to various mitochondrial membrane transport processes (ADP, ornithine, CoA, phosphate, heme), the malate-aspartate shuttle, and mitochondrial-related apoptosis, with insulin signaling often tied to metabolic control. This suggests a cluster centered on mitochondrial transport mechanisms and energy metabolism.","confidence":"High","size":28,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0035349","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0000066","count":3}]},{"hash":"1181142549885559204","title":"RNA and protein methyltransferases","description":"The top GO terms are strongly dominated by methylation activities, including N-terminal peptidyl-glycine methylation, peptidyl-lysine dimethylation, and rRNA methylation, suggesting the cluster mainly groups methyltransferases acting on RNA and proteins. Additional terms touch on metabolism (menaquinone, phospholipid biosynthesis, carbon utilization), which may reflect linked metabolic roles, but the central pattern is methyltransferase function. Confidence: High","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018013","count":3},{"id":"GO:0015976","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0008654","count":2}]},{"hash":"1064973312093962530","title":"Lung development and ER-Golgi trafficking","description":"The top GO terms cluster around lung development and epithelial differentiation, alongside endoplasmic reticulum to Golgi vesicle transport, suggesting a group of proteins involved in lung epithelial maturation that also function in intracellular trafficking. Additional terms touch on transcription regulation and responses to xenobiotics, which may reflect diverse regulatory roles within this context. Overall, the theme ties lung developmental processes with ER-Golgi transport, though layout across other processes exists. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051533","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0035690","count":4},{"id":"GO:1904378","count":3}]},{"hash":"1217312120447438503","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":14,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006888","count":1},{"id":"GO:0072752","count":1},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1}]},{"hash":"254154488255716250","title":"Embryonic development and organ growth signaling","description":"This cluster is strongly enriched for terms related to multicellular organism development, embryonic organ development, and organ/growth processes, suggesting a core theme of developmental growth signaling. Additional terms point to cell cycle, cytoskeleton dynamics (Arp2/3), and vesicle transport, which can contribute to morphogenesis and growth during development, supporting a cohesive developmental-regulatory theme.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070317","count":1},{"id":"GO:0010255","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1998548331914473524","title":"Rho/Rac/Ras signaling in immune and neural contexts","description":"Because the top terms center on regulation of Rho, Rac, and Ras signaling, along with small GTPase-mediated signaling, and are accompanied by immune-related processes (innate immunity, B cell maturation, interleukin production) plus peripheral nervous system myelin maintenance, the cluster appears to reflect GTPase-driven signaling modules active in both immune and neural contexts.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0002344","count":3},{"id":"GO:0098761","count":3}]},{"hash":"1934938886172857150","title":"Actin Cytoskeleton Remodeling and Rho Signaling","description":"The cluster is dominated by terms for actin organization (actin filament bundle assembly, filopodium assembly) and regulation of GTPase activity, notably Rho signaling. This points to actin cytoskeleton remodeling driven by Rho-family GTPases in response to signals (e.g., PDGF) and associated motility processes. Some terms like heart development or social behavior are less directly tied but may reflect broader signaling roles; overall, the core theme is actin dynamics governed by Rho GTPases.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0051017","count":2},{"id":"GO:1904424","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0036120","count":2}]},{"hash":"1662691669998481980","title":"Unknown","description":"The top GO terms are highly diverse, spanning cell wall glucan biosynthesis regulation, GTPase signaling, heart development, lamellipodium assembly, growth hormone receptor signaling, and various catabolic and stress-response processes. This mixture lacks a coherent shared function or pathway, and the cluster has no edges, suggesting no functionally cohesive group. Therefore, Unknown is the most appropriate label.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090334","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0060396","count":2}]},{"hash":"1508909516429016464","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle","description":"The top GO terms point to ubiquitin-dependent proteolysis (SCF- and APC/C-mediated) and core mitotic processes (mitotic cell cycle, anaphase-promoting complex\u2013dependent catabolic process, cell division), which together suggest regulation of the cell cycle by targeted protein degradation. While some chromatin modification terms and stress responses appear, they are secondary to the dominant theme of proteolysis-linked cell cycle control.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0000278","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0051567","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1942413907794013437","title":"Nucleotide metabolism and transcription/RNA editing","description":"This cluster shows a convergence on nucleic-acid related processes: multiple nucleotide and cofactor catabolic pathways (dGTP, dADP, IDP, diadenosine tetraphosphate) and folic acid biosynthesis, along with transcription (DNA-templated transcription) and RNA-level modification (adenosine to inosine editing). This suggests a theme centered on nucleotide metabolism coupled with gene expression regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030097","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0046709","count":2},{"id":"GO:0071544","count":2},{"id":"GO:0050992","count":2}]},{"hash":"1986347180616045890","title":"Unknown","description":"The top GO terms span many unrelated biological contexts (pain sensation, circadian regulation, nervous system development, muscle and kidney development, immune signaling, swimming, and viral latency), with no single coherent function tying the proteins together. The cluster appears heterogeneous, so a specific, representative label cannot be determined.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":2},{"id":"GO:0072156","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0019046","count":2}]},{"hash":"970350299379882541","title":"Actin Cytoskeleton Remodeling and Cell Adhesion","description":"The terms point to actin-driven structures and processes: filopodium and stress fiber assembly, Rac signaling, maintenance of cell polarity, and substrate adhesion-dependent spreading, all reflecting cytoskeleton remodeling and cell motility; a couple of outliers (ossification, myelination) are less related but don\u2019t outweigh the central theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0030011","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0051260","count":2},{"id":"GO:1902259","count":2}]},{"hash":"35876054468062327","title":"Prohormone Processing & LDL Receptor Regulation","description":"This cluster is dominated by GO terms for peptide and hormone maturation (dibasic protein processing, insulin processing, enkephalin processing, nerve growth factor production), alongside terms about LDL receptor catabolic processes and regulation, including receptor-mediated endocytosis in cholesterol transport. This suggests proteins involved in prohormone/neuropeptide processing and in regulating lipoprotein receptor turnover, tying together endocrine peptide maturation with cholesterol transport pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090472","count":2},{"id":"GO:0032802","count":2},{"id":"GO:0032805","count":2},{"id":"GO:0032902","count":2},{"id":"GO:0034230","count":2}]},{"hash":"1570051344991260824","title":"Neural development and mitotic/cytoskeletal regulation","description":"This cluster includes strong signals for neural development (brain development, neuromuscular balance) alongside mitotic processes (mitotic spindle assembly, mitotic cell cycle), cytoskeletal rearrangements, polarity, and vesicle trafficking (COPII). The co-occurrence suggests proteins that coordinate cell division with neural development and cytoskeletal dynamics that influence neuronal migration, polarity, and signaling. ","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0050885","count":8},{"id":"GO:0008283","count":8},{"id":"GO:1900026","count":8}]},{"hash":"1727870903457646980","title":"Neural development and actin cytoskeleton remodeling","description":"The cluster\u2019s top GO terms center on brain and nervous system development, with notable links to actin cytoskeleton dynamics (e.g., microspike assembly) and Rho GTPase signaling regulation, suggesting proteins that coordinate neural development through cytoskeletal remodeling and cell migration, with some association to cell division processes. This supports a cohesive theme of neural development tied to cytoskeletal regulation.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0035023","count":4}]},{"hash":"1892720536205892987","title":"Immune signaling and cell differentiation","description":"The cluster is enriched for immune-related GO terms (innate immune response, B cell receptor signaling pathway, positive regulation of dendritic cell differentiation, NK cell cytotoxicity regulation) and TGF-beta stimulus response, with additional developmental terms (bone development, skeletal muscle differentiation, endothelial chemotaxis). This points to proteins involved in immune cell development and signaling, modulated by TGF-beta and linked to broader tissue remodeling and development. Confidence: Medium","confidence":"","size":27,"edges":21,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0045953","count":3}]},{"hash":"468133936933138947","title":"Unknown","description":"GO terms are spread across development, cell cycle regulation, signaling, stress response, and amyloid-beta clearance with no single dominant theme. The absence of connecting edges and a coherent functional signature suggests this cluster does not form a unified biological module. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051436","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0031571","count":2}]},{"hash":"85841997125608946","title":"Amino acid transport and nutrient stress response","description":"The top GO terms flag several amino acid transport processes (proline, histidine, asparagine, glutamate) and potassium ion transport, along with cellular responses to potassium and nitrogen starvation, suggesting a core function in amino acid/ion transport under nutrient stress. Some terms (translation, root cap development) appear ancillary or broad, but the dominant theme is transport and nutrient stress adaptation. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051458","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0015824","count":2},{"id":"GO:0089708","count":2}]},{"hash":"907500247399374072","title":"Methylation-Driven Epigenetic Regulation","description":"The cluster is dominated by methylation-related processes: peptidyl-lysine methylation (dimethylation, trimethylation), N-terminal methylation, and rRNA methylation, plus rDNA heterochromatin formation, all pointing to epigenetic and RNA modification roles. Some hematopoietic differentiation terms and lipopolysaccharide response may reflect immune-related epigenetic regulation, reinforcing a theme of methylation-driven control of gene expression.","confidence":"High","size":27,"edges":249,"triangles":1199,"max_degree":26,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0000183","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0045648","count":6},{"id":"GO:0010725","count":6}]},{"hash":"159607411102184359","title":"Ubiquitin-Proteasome Degradation and Metal Stress Response","description":"The top terms are dominated by ubiquitin-dependent protein catabolic processes and polyubiquitination, plus SCF-dependent proteasomal degradation, indicating a core role in ubiquitin-proteasome\u2013mediated proteolysis. Additional signals include responses to heavy metals and circadian rhythm regulation, suggesting the cluster links proteostasis with stress and rhythm control.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0000209","count":16},{"id":"GO:0031146","count":15},{"id":"GO:1903378","count":15},{"id":"GO:0042752","count":14}]},{"hash":"2272769697332989148","title":"RNA splicing and translation initiation machinery","description":"The cluster shows strong enrichment for spliceosome- and processome-related terms (mRNA splicing via spliceosome, small-subunit processome assembly, alternative splicing) alongside translation initiation and reinitiation terms (formation of translation preinitiation complex, translation reinitiation). This points to a cohesive set of proteins involved in RNA processing and early stages of translation, with some hints of regulatory RNA involvement. ","confidence":"High","size":27,"edges":139,"triangles":509,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13},{"id":"GO:0006378","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9}]},{"hash":"1316626811963520087","title":"Neural Development and Transcription Regulation","description":"The cluster is dominated by neural development signals (brain and spinal cord development) and transcriptional control (regulation of DNA-templated transcription, DNA-templated transcription). Some other terms point to cytoskeletal dynamics (microtubule-based movement) and general cellular machinery (ribosome biogenesis, rRNA processing), suggesting proteins that support neural development through gene expression and cellular architecture. The absence of edges suggests diverse roles across these processes, but the strongest theme remains neural development coupled with transcription regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0070493","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0007205","count":3}]},{"hash":"455622401742451689","title":"Unknown","description":"The top GO terms are highly divergent: several reproduction-related terms (male sex differentiation, prostate gland development, female pregnancy) co-occur with stress/immune responses (cellular response to type I interferon, amino acid starvation) and mitochondrial dynamics (mitochondrial membrane fission) plus necroptosis regulation. There is no clear, unified biological process tying these together; the annotations appear heterogeneous or noisy. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0046661","count":2},{"id":"GO:0030850","count":2},{"id":"GO:0071357","count":2},{"id":"GO:0006463","count":2}]},{"hash":"987581325811704941","title":"Retinoid Metabolism and Signaling","description":"The cluster is dominated by GO terms for retinal and retinol metabolism and regulation of retinoic acid receptor signaling, pointing to a core role in vitamin A (retinoid) biology. While other metabolic terms appear (e.g., bile acid and certain carbohydrate processes), the retinoid-related terms are the strongest and most specific cluster signal.","confidence":"High","size":27,"edges":244,"triangles":1213,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":16},{"id":"GO:0042574","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0019568","count":12},{"id":"GO:0046370","count":12}]},{"hash":"795177136102792831","title":"Bacterial sporulation and flagellar signaling","description":"This cluster is dominated by sporulation-related terms (formation of cellular spores and regulation of sporulation) and by bacterial-type flagellum-dependent motility, plus a phosphorelay signal transduction system, suggesting a Bacillus-like sporulation-regulatory/motility signaling module. The other terms (transcription, xenobiotic response, glucose metabolism) seem peripheral to the core sporulation/motility theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030435","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0007205","count":5}]},{"hash":"1608161020512908955","title":"Membrane Transporters and Insulin Signaling","description":"The top GO terms indicate transmembrane transport for glucose in response to insulin, xenobiotics, and vitamins, plus the insulin receptor signaling pathway, pointing to a core role in membrane transport and nutrient/ligand sensing. While a few terms relate to telomere maintenance and fibroblast migration, the dominant theme is transporter activity tied to insulin-related signaling and nutrient uptake.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0042891","count":4},{"id":"GO:0035461","count":4},{"id":"GO:1904355","count":3}]},{"hash":"1137499178105672867","title":"GTPase signaling and morphogenesis regulators","description":"These terms cluster around regulation and activation of small GTPases (Rho, Rac, Rap, Ral) and their signaling pathways, with associated morphogenesis in heart and brain tissues (pericardium, cardiac atrium, midbrain). The common thread is cytoskeletal signaling guiding developmental morphogenesis, though the cluster also touches on broader developmental processes like immune and reproductive differentiation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0003344","count":3},{"id":"GO:1904693","count":3},{"id":"GO:2000973","count":3},{"id":"GO:0032485","count":3}]},{"hash":"60945750256587218","title":"cAMP-regulated GTPase signaling","description":"This cluster centers on GO terms for cAMP signaling and small GTPases (Rho, Rap) and GTPase activity, plus insulin secretion and cellular response to cAMP, indicating a common theme of cAMP-dependent regulation of GTPase signaling. A few terms related to morphogenesis and dendritic cell apoptosis may reflect broader signaling roles but do not override the core theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019933","count":3},{"id":"GO:0030073","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0032486","count":3}]},{"hash":"46972395503355679","title":"Developmental Signaling and Cell Migration","description":"This cluster centers on signaling pathways (Rho, GPCR desensitization, PI3K-AKT, insulin receptor signaling) and processes related to development (heart development, hemopoiesis) along with cell movement (positive regulation of fibroblast migration) and apoptosis. The combination suggests a broad network of signaling events guiding development and cellular migration rather than a single, narrow function, so the label reflects the overarching theme.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0008286","count":5},{"id":"GO:0002029","count":5},{"id":"GO:0043491","count":5}]},{"hash":"1254046938899689873","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0035948","count":2}]},{"hash":"1097248299941575822","title":"RNA Splicing and Post-transcriptional Regulation","description":"The cluster is enriched for mRNA splicing via spliceosome, positive regulation of splicing, mRNA export from nucleus, and regulation of translational initiation, indicating a cohesive theme of post-transcriptional RNA processing and control of gene expression. A few development-related terms suggest context in embryogenesis but do not outweigh the RNA-centric signals.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0060716","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0045292","count":2}]},{"hash":"1333459111710679352","title":"Broad Biosynthesis and Transcription","description":"The top GO terms point to multiple, distinct biosynthetic pathways (colanic acid, galactose, phenylpropanoid, anthocyanin, ubiquinone) and to transcription-related processes (DNA-templated transcription, nitrogen catabolite repression), suggesting a heterogeneous group of proteins involved in general metabolism and transcriptional regulation rather than one specific pathway. The lack of network connections (Edges/Triangles: 0) supports a broad, non-cohesive cluster. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009242","count":1},{"id":"GO:0006012","count":1},{"id":"GO:0009699","count":1},{"id":"GO:0006541","count":1},{"id":"GO:0009718","count":1}]},{"hash":"745086472252527912","title":"Developmental Regulation and Morphogenesis","description":"The GO terms cluster around development and morphogenesis across multiple tissues (Sertoli cell development, endothelial cell chemotaxis, embryonic digestive tract morphogenesis, Harderian gland development) and include regulation of cell proliferation and stem cell proliferation, plus transcriptional control and TGF-beta signaling. Together these point to a broad theme of developmental regulation and tissue morphogenesis, even though the proteins show diverse contexts and there are no network edges observed.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0060009","count":1},{"id":"GO:0003357","count":1},{"id":"GO:0035767","count":1}]},{"hash":"1225652571234734461","title":"Neuronal vesicle trafficking and GTPase signaling","description":"The top GO terms point to small GTPase\u2013mediated signaling and presynaptic vesicle dynamics (synaptic vesicle budding), with supporting lipid signaling and membrane-related processes (phosphatidylinositol dephosphorylation, sterol biosynthesis) and neuronal behavior. This combination suggests a cohesive theme of neuronal vesicle trafficking governed by GTPase signaling and lipid metabolism, justifying the label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0055114","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0016185","count":3}]},{"hash":"1646503977585562724","title":"Golgi-ER vesicle trafficking","description":"The top GO terms are dominated by vesicle transport between the Golgi and endoplasmic reticulum, including ER-to-Golgi and Golgi-to-ER pathways and Golgi vesicle fusion, indicating a cluster of proteins involved in Golgi-ER trafficking. Some unrelated biosynthetic and transcription terms appear but do not define the main function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0048280","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042147","count":2}]},{"hash":"1347669478187464883","title":"Autophagy: Cvt and phagophore targeting","description":"This cluster is dominated by autophagy-related GO terms: cytoplasm-to-vacuole targeting (Cvt pathway), protein localization to the phagophore assembly site, and autophagy of peroxisomes, with additional transport terms. These consistently point to proteins involved in autophagic vesicle formation and targeting, suggesting a cohesive autophagy/vesicle-traffic role for the cluster. Some unrelated terms (developmental processes) are likely noise.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0034497","count":2},{"id":"GO:0030242","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1529927067915406866","title":"AMPA receptor clustering and social behavior","description":"The cluster is strongly enriched for neural synaptic terms, especially AMPA receptor clustering and glutamatergic synaptic transmission, with behavioral terms such as social behavior and vocalization also prominent. This pattern points to proteins involved in postsynaptic density and synaptic signaling that influence social/communication behaviors, with other signaling terms like calcineurin-NFAT and phosphatidylinositol dephosphorylation likely representing common neuronal signaling contexts. Overall, the theme is neuronal synaptic function linked to social/communication behavior.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046856","count":3},{"id":"GO:0050798","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0097117","count":2}]},{"hash":"1595038234766803141","title":"Actin cytoskeleton remodeling and cell migration","description":"The top terms center on actin-driven protrusions (filopodium, podosome, ruffle), actin polymerization, adhesion-dependent spreading, and overall cell migration, all under regulation by small GTPases. The inclusion of polarity establishment and Wnt signaling modulation further supports a coordinated cytoskeletal dynamics and motility program. This combination strongly points to a cluster of proteins involved in actin remodeling to promote cell movement.","confidence":"High","size":26,"edges":9,"triangles":1,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0007264","count":12},{"id":"GO:0016477","count":10},{"id":"GO:0090263","count":10}]},{"hash":"2170673587973240473","title":"Xenobiotic and Nutrient Transport Under Stress","description":"These proteins cluster around membrane transport for xenobiotics, nutrients, and related substrates (including vitamins, anions, teichoic acids, and fatty acids) and include stress-response processes (SOS, mercury). The common theme is transport and handling of external or nutrient-derived molecules under cellular stress, rather than a single pathway.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007584","count":8},{"id":"GO:0009432","count":8},{"id":"GO:0006855","count":7},{"id":"GO:0035461","count":7},{"id":"GO:0042493","count":6}]},{"hash":"1494461733562718218","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":206,"triangles":978,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":25},{"id":"GO:0019236","count":25},{"id":"GO:0050709","count":24},{"id":"GO:0031291","count":24},{"id":"GO:0007117","count":24}]},{"hash":"149504645084668531","title":"General signal transduction and stimulus response","description":"The top GO terms point to intracellular signaling and responses to various stimuli (cell communication, pain perception, chemokine production, vitamin D response, and general signal transduction). The presence of actin filament assembly hints at cytoskeletal remodeling linked to signaling. While Wnt signaling and SA node action potential regulation touch on specific pathways, the overall theme across proteins appears to be mediating signal transduction and modulation of cellular responses rather than a single specialized function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":4},{"id":"GO:0010650","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0098907","count":3}]},{"hash":"502991833715495336","title":"Rho/Rap GTPase signaling and actin remodeling","description":"The terms emphasize regulation of GTPases (Rho, Rap), their signaling pathways, and actin filament assembly, together with vesicle and intracellular transport; these reflect a cohesive theme of cytoskeletal remodeling driven by GTPase signaling, relevant to processes like neuronal collateral sprouting and secretory vesicle trafficking.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0032487","count":2},{"id":"GO:0030073","count":1},{"id":"GO:0043951","count":1},{"id":"GO:0048668","count":1}]},{"hash":"687526379021203381","title":"Ubiquitin-Proteasome and ERAD Pathways","description":"The top GO terms cluster around ubiquitin-mediated protein degradation (SCF-dependent proteasomal catabolic process, protein polyubiquitination) and ER-associated degradation (ERAD), with related proteostasis and ER-Golgi trafficking signals, suggesting a theme of protein turnover and quality control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0000209","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0030433","count":5}]},{"hash":"912446936479683861","title":"ER-Golgi vesicle transport and eye development","description":"The GO terms show strong enrichment for ER-Golgi vesicle transport (anterograde and retrograde) along with pigmentation and camera-type eye morphogenesis, suggesting a common theme linking secretory pathway trafficking to ocular development and pigmentation, with additional developmental signaling terms (EGFR, TGF-beta) reinforcing a broader developmental context.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006890","count":3},{"id":"GO:0043473","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0097421","count":2}]},{"hash":"1368156535039517789","title":"TLR-driven innate immune signaling","description":"The cluster is dominated by GO terms tied to defense against bacteria, positive regulation of inflammatory responses, and Toll-like receptor signaling pathways (TLR7 and TLR10), along with chemokine production. This combination points to innate immune recognition and inflammatory signaling as the core shared function of the proteins. Some terms (chromatin localization, manganese response, brassinosteroid detection, chloroquine response) may be peripheral or context-specific annotations. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0050729","count":7},{"id":"GO:0090394","count":6},{"id":"GO:0071287","count":6},{"id":"GO:0071169","count":6}]},{"hash":"922923498400132691","title":"PARP-related DNA repair and chromatin regulation","description":"The terms cluster around poly-ADP-ribosylation (PARP activity), PAR-mediated ATP generation, and DNA repair processes (mitochondrial DNA repair, DNA ligation in repair), with links to chromatin remodeling (heat shock\u2013induced puffing) and transcription-related activities (mRNA processing). Although a few terms mention Wnt signaling, the dominant theme is DNA repair and chromatin/transcription regulation through PARP pathways. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0070212","count":3},{"id":"GO:0006397","count":2},{"id":"GO:0006273","count":2}]},{"hash":"86966095564321785","title":"Neurodevelopment and neurotransmitter regulation","description":"The top GO terms emphasize neural development (neuron projection extension, cerebral cortex development) and neurotransmitter dynamics (serotonin secretion regulation, dopamine metabolism), suggesting the cluster centers on brain development and modulation of neurotransmitter signaling. Other terms like thiamine biosynthesis and stress/immune responses are present but less representative of the core theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":6},{"id":"GO:0051412","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0071320","count":4},{"id":"GO:0045648","count":4}]},{"hash":"839566016281565999","title":"Unknown","description":"These 26 proteins show a very scattered set of GO terms: GPCR glutamate receptor signaling, microautophagy of the nucleus, pectin catabolism, endocannabinoid signaling, arachidonate metabolism, camalexin biosynthesis, diacylglycerol and triglyceride catabolism, multivesicular body disassembly, and UV-B response. With only single-term hits and no interactions (Edges and Triangles are zero), there is no clear unifying function. Therefore a specific label is not justifiable; Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007216","count":1},{"id":"GO:0034727","count":1},{"id":"GO:0045490","count":1},{"id":"GO:0098921","count":1},{"id":"GO:0019369","count":1}]},{"hash":"144041064213443197","title":"Adipogenesis and Cytoskeletal Signaling","description":"The cluster is enriched for fat cell differentiation and actin-based cytoskeleton remodeling (actin filament bundle assembly, cell migration), with broader intracellular signaling and mechanotransduction terms, suggesting a theme of adipocyte differentiation coupled to cytoskeletal dynamics. Some terms also reflect immune signaling pathways that can intersect metabolism, but the strongest signals point to adipogenesis and cytoskeletal regulation. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0045444","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016477","count":5}]},{"hash":"959201726721743848","title":"Metabolic signaling and cell-cycle regulation","description":"The cluster shows metabolic themes (hydrogen sulfide biosynthesis, GTP and gluconeogenesis, glucose starvation response) alongside cell-cycle control (regulation of mitotic metaphase/anaphase transition) and transport/assembly processes (nuclear import, magnesium transport, protein tetramerization), suggesting proteins that coordinate energy metabolism and stress responses with cell-cycle progression and nuclear trafficking.","confidence":"Medium","size":25,"edges":297,"triangles":2232,"max_degree":24,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070814","count":16},{"id":"GO:0030071","count":16},{"id":"GO:0045722","count":16},{"id":"GO:0006535","count":16},{"id":"GO:0006183","count":16}]},{"hash":"2046784221838512635","title":"Cytoskeleton remodeling and signaling during development","description":"The cluster is enriched for regulators of cytoskeleton dynamics and signaling, including positive regulation of GTPase activity and Arp2/3-mediated actin nucleation. It also features several phosphorylation-related terms (serine/threonine kinase activity, autophosphorylation, tyrosine phosphorylation), suggesting coordinated signaling. The presence of embryonic organ development and mitotic cell cycle hints at developmental growth and cell division contexts. A few terms (mRNA transport, ubiquitin-dependent ERAD) appear ancillary but may reflect broader proteostasis and RNA processing during development. Overall, the cluster centers on cytoskeletal regulation and signaling in a developmental context.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0000278","count":4},{"id":"GO:2000601","count":4},{"id":"GO:0071456","count":4}]},{"hash":"1163938867942147814","title":"Neuronal development and synaptic vesicle trafficking","description":"The cluster shows strong signals for nervous system development, excitatory synaptic activity, and regulation of synaptic vesicle endocytosis and endosomal sorting, pointing to a core role in neuronal differentiation and synaptic trafficking. Less coherent terms like mitotic cell cycle and ossification may reflect secondary annotations or shared protein features, but the dominant pattern supports a neuronal/synaptic theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035435","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0071985","count":3}]},{"hash":"677975619970434135","title":"Transmembrane Transporters for Ions and Nutrients","description":"The top GO terms cluster around membrane transport: nitrate/nitrite transport, sodium ion transport, and sugar transport (sialic acid, galactose), plus a term for neurotransmitter loading into synaptic vesicles, indicating transport machinery. Some terms appear tangential or obsolete, but the unifying theme is transmembrane transporters.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0042891","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0035725","count":2}]},{"hash":"458231519170279152","title":"Endocrine pancreas development and ciliogenesis","description":"The top GO terms point strongly to endocrine pancreas development, pancreatic cell differentiation/maturation, and regulation of transcription during development, plus cilium assembly and cilium-dependent motility, suggesting a cluster centered on pancreatic endocrine cell differentiation with links to ciliogenesis. Some general developmental processes (nucleosome disassembly, transcription regulation) support a broader developmental theme, but the key shared function appears to be pancreatic endocrine development intertwined with ciliogenic processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0006357","count":1},{"id":"GO:0021696","count":1},{"id":"GO:0031018","count":1},{"id":"GO:0060285","count":1}]},{"hash":"875772031984490380","title":"Ubiquitin-Proteasome\u2013Cell Cycle Regulation","description":"The cluster is dominated by ubiquitin-dependent proteolysis terms (including SCF-dependent proteasomal degradation) and regulation of circadian rhythm, coupled with mitotic G1 DNA damage checkpoint and regulation of DNA replication initiation. This points to a cohesive role of targeted protein degradation in governing circadian timing and cell-cycle progression, with checkpoint control and DNA replication initiation being tightly linked to ubiquitin signaling. Some stress-response terms to metals appear, but the core theme remains ubiquitin-proteasome\u2013driven cell-cycle regulation.","confidence":"High","size":25,"edges":30,"triangles":9,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0042752","count":14},{"id":"GO:0031146","count":14},{"id":"GO:0031571","count":13},{"id":"GO:1902916","count":13}]},{"hash":"728844630074798956","title":"ER-Golgi Vesicle Transport","description":"The Top Terms show a clear enrichment for vesicle trafficking within the endomembrane system: ER-to-Golgi transport, retrograde Golgi-to-ER transport, and non-autophagic vacuole fusion. Translation is also present but likely reflects general cytosolic components rather than the primary theme. Overall, the cluster appears centered on vesicle formation and trafficking between ER, Golgi, and related compartments, justifying this label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042144","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0005981","count":1}]},{"hash":"1426753327684546461","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0051028","count":4}]},{"hash":"2191311724110530331","title":"Neuronal transport and ubiquitin regulation","description":"The cluster shows a mix of membrane transport functions (xenobiotic and vitamin transport), vesicular trafficking regulation (endosome-to-Golgi transport), and ubiquitin-related processes (ERAD pathway, autoubiquitination), combined with neuronal signaling clues (dopamine response, regulation of postsynaptic potentials, nerve branching). This suggests a theme around neuronal transport coupled with protein regulation by ubiquitin, rather than a single, narrow function. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0006469","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0035461","count":3}]},{"hash":"1181417466064519451","title":"EGF-Driven Cell Migration and Signaling","description":"Reasoning: The prominent terms center on EGF response, GTPase activation, lamellipodium assembly, and positive regulation of fibroblast migration, all linked to actin remodeling and PI3K/AKT signaling. This points to an EGFR-driven motility/signaling module in fibroblasts. A few outlier terms (glucose transport, myelination, cardiac contraction) appear in the set but are not the central theme, so the label remains focused on EGFR-associated migration and signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":3},{"id":"GO:0071364","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0010763","count":3},{"id":"GO:0070560","count":3}]},{"hash":"1167605592669931836","title":"Regulated heart, vascular, and brain development","description":"The top GO terms point to organogenesis and vascular/neuronal patterning (heart morphogenesis; negative regulation of angiogenesis and blood vessel remodeling; corpus callosum development; axonal fasciculation) coupled with metabolic signaling (regulation of insulin receptor signaling pathway; response to glucose) and innate immune activity. This suggests a cluster of proteins coordinating developmental processes in the heart, vessels, and brain, with metabolic and immune regulation intertwined. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0003007","count":2}]},{"hash":"2060921832868216171","title":"Actin remodeling and vesicle trafficking","description":"The cluster shows strong representation of actin-related terms (regulation of actin cytoskeleton organization; microspike assembly), indicating actin dynamics. It also includes vesicle transport terms between the ER and Golgi and synaptic vesicle budding, pointing to vesicular trafficking and secretory pathway processes. Some obsolete terms appear, likely noise. Overall, a concise label emphasizing actin remodeling paired with vesicle trafficking best captures the dominant themes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032956","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0009089","count":2},{"id":"GO:0019877","count":2},{"id":"GO:1901998","count":2}]},{"hash":"1752476000403802756","title":"Developmental gene regulation and splicing","description":"The top GO terms cluster around developmental processes (multicellular organism development, skin and spinal cord development) alongside gene expression activities (DNA-templated transcription, mRNA splicing) and related cellular functions (cilium assembly, GTPase regulation). This pattern suggests a group of proteins involved in developmental regulation and regulation of transcription/splicing, rather than a single cohesive enzymatic pathway. Therefore, the label reflects a broader developmental and gene-expression-centric role for the cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1552106461369549852","title":"Mitochondrial Transporters","description":"The set is dominated by GO terms for transmembrane transport in mitochondria, including ADP and phosphate transport, ornithine transport, the malate\u2013aspartate shuttle, heme transport, and CoA transport, plus mitochondrial changes during apoptosis and references to mitochondrial genome maintenance. While a couple terms relate to insulin or interferon signaling, the strongest signal is mitochondrial carrier/transport activity, suggesting the cluster represents mitochondrial transport proteins and related metabolic shuttles.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0071357","count":3},{"id":"GO:0035349","count":2},{"id":"GO:0008637","count":2},{"id":"GO:0000066","count":2}]},{"hash":"2041301298767808144","title":"Angiogenic growth factor signaling and vascular development","description":"Most of the terms point to vascular biology and growth-factor\u2013driven signaling: responses to PDGF and VEGF, blood vessel morphogenesis, and MAP kinase pathway regulation, which together suggest angiogenesis and endothelial development as the cluster\u2019s theme. Some terms touch on broader developmental or bone remodeling processes (spinal cord development, osteoclast differentiation), but the vascular/angiogenic signals are the strongest pattern.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0036120","count":5},{"id":"GO:0045671","count":5},{"id":"GO:0008625","count":5}]},{"hash":"1846799487778803518","title":"Regulation of Exocytosis and Vesicle Trafficking","description":"The cluster features GO terms tied to vesicle exocytosis and secretory processes across diverse cell types (neutrophil degranulation, acrosome reaction, synaptic vesicle priming, receptor clustering at neuromuscular junction), as well as signaling that governs cytoskeletal dynamics (Rho signaling) and cell movement (extravasation, vessel remodeling). While a range of contexts exist, the common thread is regulation of vesicle trafficking and exocytotic events, with supporting roles of cytoskeletal regulation and membrane organization.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0060313","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0002692","count":3}]},{"hash":"1968543131303955445","title":"Metal-stress proteostasis and DNA damage response","description":"This cluster centers on ubiquitin-proteasome\u2013mediated proteolysis in response to metal toxicity (cadmium, methylmercury) and DNA damage signaling (G1 checkpoint), with supporting links to circadian regulation and synaptic components. The dominant theme is proteostasis under metal-induced stress coupled to DNA damage response.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0031571","count":7},{"id":"GO:0071406","count":6}]},{"hash":"1423050215949413616","title":"Neural development and cytoskeletal dynamics","description":"The cluster is dominated by terms related to nervous system and brain development, dendrite morphogenesis, and regulation of axonogenesis, indicating neural differentiation and morphology. Additional terms point to cytoskeletal regulation (actin cytoskeleton, focal adhesion assembly) and protein stability, suggesting coordinated cytoskeletal remodeling during neural development. A few non-neural terms appear, but the neural development theme is strongest.","confidence":"High","size":24,"edges":13,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0000186","count":6},{"id":"GO:0048813","count":5},{"id":"GO:0051893","count":5},{"id":"GO:0050771","count":5}]},{"hash":"1323413940361394721","title":"Neuronal development and synaptic signaling","description":"Most top GO terms point to nervous system development and synaptic function, including dendrite morphogenesis, hippocampus development, excitatory postsynaptic potential, calcium-dependent exocytosis, and regulation of JNK signaling. A few terms (mitotic cell cycle, T cell receptor signaling) are broader or cross-cutting but do not dominate the cluster\u2019s theme. Overall, the cluster appears to group proteins involved in neural development and synaptic activity.","confidence":"Medium","size":24,"edges":43,"triangles":29,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":22},{"id":"GO:0050852","count":22},{"id":"GO:0033138","count":22},{"id":"GO:0048813","count":21},{"id":"GO:0045956","count":21}]},{"hash":"4596265554592496","title":"Multi-tissue Morphogenesis and Rac-GTPase Signaling","description":"This cluster is dominated by GO terms describing morphogenesis across diverse tissues (pericardium, midbrain, cardiac atrium, imaginal disc-derived leg morphogenesis) and includes terms related to Rac signaling and GTPase activation, pointing to a developmental/morphogenetic function with associated signaling. Ubiquitin-related processes appear (polyubiquitination, ERAD) but seem ancillary rather than defining; overall, the shared theme is developmental morphogenesis with small GTPase signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003344","count":2},{"id":"GO:1904693","count":2},{"id":"GO:2000973","count":2},{"id":"GO:0007296","count":2},{"id":"GO:0035022","count":2}]},{"hash":"1760255061774599576","title":"Cytoskeleton remodeling and cell migration","description":"The top GO terms converge on cytoskeletal dynamics and migratory behavior: podosome assembly, small GTPase\u2013mediated signaling, epithelial polarity establishment, and cellular responses to mechanical stimuli, all of which point to cytoskeleton-driven migration and signaling. Apoptosis terms are present but not dominant, suggesting these proteins cluster around motility and cytoskeletal regulation rather than a single apoptotic pathway.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0097284","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0090162","count":2}]},{"hash":"47242181949400306","title":"Chromatin remodeling and signaling regulators","description":"This cluster centers on chromatin remodeling and transcription regulation, with notable involvement in signaling pathways (Rho and ERK cascades) and cell behavior processes such as endothelial chemotaxis, spindle assembly, and proliferation. While a few terms like phototransduction and viral release appear, the dominant themes are regulation of chromatin state, gene expression, and signaling that govern cellular growth and movement.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":3},{"id":"GO:0035025","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0035767","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1822407231163053986","title":"Developmental cell adhesion and morphogenesis","description":"The cluster\u2019s top GO terms cluster around cell\u2013cell adhesion and junction assembly (calcium-dependent adhesion, adherens junction assembly), as well as developmental processes (medulla oblongata development, endodermal fate commitment, maintenance of organ identity). Additional terms for cytokinesis and chromatin remodeling point to coordination of proliferation and gene regulation during tissue formation. Together, they suggest a cohort of proteins coordinating tissue organization and morphogenesis through cell adhesion and developmental regulation.","confidence":"Medium","size":24,"edges":91,"triangles":155,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0000011","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0048496","count":6},{"id":"GO:0048096","count":5}]},{"hash":"1584298210211293409","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0030422","count":1},{"id":"GO:0000494","count":1},{"id":"GO:0006370","count":1}]},{"hash":"339628712672483281","title":"Ubiquitin-regulated immune signaling","description":"This cluster is enriched for immune-related GO terms (innate immune response, B cell receptor signaling, Notch signaling, I-kappaB phosphorylation) and for ubiquitin-dependent protein catabolic processes, suggesting regulation of immune signaling by ubiquitin-mediated degradation. Additional terms point to broader signal transduction control (Rho/Ras pathways) and lipid catabolism, reflecting coordinated regulation of signaling and cellular stress responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0009395","count":3}]},{"hash":"461022199539943117","title":"Immune signaling and developmental pathways","description":"The top GO terms are dominated by immune signaling (B cell receptor signaling, T cell receptor signaling, innate immune response) with some development-related terms (thymus, heart, parathyroid). Although there are no reported edges in this cluster, the recurring theme across the terms suggests the proteins are primarily involved in immune signal transduction, with possible roles in developmental processes. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0048538","count":5}]},{"hash":"1840019431498234105","title":"Actin Cytoskeleton Dynamics and Cell Migration","description":"This cluster is dominated by GO terms tied to actin cytoskeleton organization, lamellipodium assembly, and microtubule-based movement, all core components of cell migration and cytoskeletal remodeling. Additional terms point to Rho signaling regulation and processes relevant to nervous system development (spinal cord development) and locomotion, aligning with motility and neural function. A single translation term is present but does not override the prominent motility/theme signals; overall, the cluster reflects cytoskeleton-driven movement and neural/motor development processes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0007018","count":4},{"id":"GO:0021510","count":4}]},{"hash":"2129867202426209529","title":"Lipid metabolism and fatty acid response","description":"The top GO terms are dominated by lipid-related processes: response to fatty acid, phospholipid catabolic process, and sphingosine metabolic process, suggesting a cluster focused on lipid metabolism and lipid signaling. Some other terms point to general cellular metabolism, ion homeostasis, and detoxification, but they appear secondary to the lipid-centric themes. Confidence reflects this partial overlap\u2014not all terms fit perfectly, but the lipid theme is prominent.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":2},{"id":"GO:0006882","count":2},{"id":"GO:0009395","count":1},{"id":"GO:0044329","count":1},{"id":"GO:0015760","count":1}]},{"hash":"1647576080805744125","title":"Innate Immune Activation and Inflammasome Regulation","description":"Based on the top GO terms, the proteins cluster around innate immune processes: innate immune response, macrophage activation, detection of lipopolysaccharide, IL-6 and interferon production, and NLRP3 inflammasome assembly. This points to a cohesive role in inflammatory signaling and inflammasome regulation in immune cells, despite a few outlier terms like axon guidance. Overall, the dominant theme is innate immune activation and inflammation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1900227","count":3},{"id":"GO:0045410","count":3},{"id":"GO:0032497","count":3},{"id":"GO:0050729","count":3},{"id":"GO:0045078","count":3}]},{"hash":"1497622810288357732","title":"Membrane Transport and Lipid Metabolism","description":"The cluster\u2019s top GO terms point to membrane transport (xenobiotic and vitamin transmembrane transport, antibiotic transport) and lipid-related catabolic processes (phosphatidylethanolamine and phosphatidylinositol catabolic processes), suggesting proteins involved in moving molecules across membranes and remodeling membrane lipids. Some terms are less directly related (dorsal appendage formation, intestinal structure maintenance), but the dominant signal is transport across membranes coupled with lipid metabolism.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0042891","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0046338","count":2},{"id":"GO:0031161","count":2}]},{"hash":"2190645719322574025","title":"Redox Metabolism and Xenobiotic Catabolism","description":"The top GO terms point to redox homeostasis and mitochondrial electron transport alongside catabolic processes for xenobiotics (camphor, carbazole), suggesting a cluster tied to energy metabolism and detoxification under oxidative stress. Some terms are obsolete or development-related, but the recurring redox and xenobiotic metabolism signals support a cohesive theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0007568","count":4},{"id":"GO:0019383","count":4},{"id":"GO:0046232","count":4},{"id":"GO:0055114","count":4}]},{"hash":"2163250194707768115","title":"Ubiquitin-Dependent Protein Degradation (ERAD)","description":"The top GO terms cluster around ubiquitination and proteostasis: ubiquitin-dependent ERAD pathway, autoubiquitination, ubiquitin-dependent protein catabolic process, and various ubiquitination types, indicating a common function in tagging and degrading proteins via the ubiquitin-proteasome system, particularly ER-associated degradation. Some immune-related terms (defense/innate responses) may reflect ubiquitin signaling roles in antiviral defenses, but the dominant theme is ubiquitin-mediated protein degradation. The lack of network edges suggests the proteins share functional annotations rather than direct interactions in this dataset.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0070534","count":5},{"id":"GO:0016567","count":4}]},{"hash":"1833218403359383638","title":"Rho-driven actin remodeling in morphogenesis","description":"The top GO terms cluster around Rho GTPase signaling (activation and regulation) and cytoskeletal processes such as filopodium and lamellipodium assembly, which are key for actin-driven cell movement and shape changes. Coupled with morphogenesis terms like midbrain and pericardium morphogenesis, the proteins likely participate in Rho-dependent cytoskeletal remodeling during developmental processes. While additional terms (e.g., IGF signaling, vascular or hematopoietic aspects) appear, the core theme is cytoskeletal dynamics guiding morphogenesis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904693","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0035024","count":2},{"id":"GO:0003344","count":2}]},{"hash":"905426226285019937","title":"Actin Cytoskeleton and Signaling","description":"The top GO terms cluster around actin cytoskeleton dynamics (actin filament network formation, muscle thin filament assembly) and cell organization (maintenance of cell polarity), with supporting signals from GPCR signaling and transcriptional regulation (NF-kappaB) and even functional readouts in immune and neural contexts. This suggests a cohesive theme of cytoskeletal remodeling coupled to signal transduction that influences cell shape, polarity, and responses, even though some terms (meiosis, Th1 response) appear peripheral. Overall, a concise label focusing on actin and signaling best captures the shared function of these proteins.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051639","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0030011","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0014041","count":2}]},{"hash":"992085830542914384","title":"Developmental growth and cell cycle regulation","description":"The GO terms cluster around embryonic development, multicellular growth, and cell cycle control (including negative regulation of G0 to G1 and mitotic cell cycle), supported by signaling (TGF-beta and glucose-mediated pathways), cytoskeletal remodeling (Arp2/3 nucleation), and proteasomal protein turnover, all pointing to coordinated development and proliferation control in embryos.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070317","count":4},{"id":"GO:0010255","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0048568","count":4},{"id":"GO:0000278","count":4}]},{"hash":"750161094427343354","title":"Glycerophospholipid Biosynthesis Cluster","description":"The top GO terms show multiple phospholipid biosynthetic processes (phosphatidylethanolamine, phosphatidylserine, phosphatidylglycerol) and related lipid signaling (platelet activating factor biosynthesis, response to phosphatidylethanolamine), indicating lipid metabolism as the central theme of this cluster. Some ubiquitin-related deubiquitination terms appear but seem incidental to the main lipid-focused signal. Confidence: Medium.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006646","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0006659","count":2},{"id":"GO:0006663","count":2},{"id":"GO:1905711","count":2}]},{"hash":"2009410493813802024","title":"Cytoskeleton dynamics and cell adhesion","description":"This cluster centers on cytoskeletal assembly and remodeling (mitotic spindle, filopodium, stress fiber) and adhesion-driven cell spreading, with Rho signaling as a key regulator. Developmental morphogenesis terms also suggest roles in tissue shaping through cytoskeletal changes. Overall, the proteins appear tied to dynamic cytoskeletal organization and cell\u2013matrix interactions rather than a single narrow function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":9},{"id":"GO:0043552","count":7},{"id":"GO:0003344","count":6},{"id":"GO:1904693","count":6},{"id":"GO:2000973","count":6}]},{"hash":"2141774421223960276","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The cluster is enriched for SCF-dependent ubiquitin-proteasomal catabolic processes and polyubiquitination, pointing to a core function in targeted protein degradation. Additional terms involve DNA damage checkpoint signaling and replication initiation, suggesting links between proteostasis and genome maintenance, with some stress-related neuronal signaling terms that can feed into ubiquitin pathways.","confidence":"High","size":23,"edges":8,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0042787","count":8},{"id":"GO:0000209","count":7},{"id":"GO:0031571","count":7},{"id":"GO:1902916","count":7}]},{"hash":"766150352019501986","title":"Unknown","description":"The top GO terms cover a wide range of processes (cAMP signaling, immune differentiation, insulin secretion, eye/eyelid development, dendrite morphogenesis, rRNA maturation) with no clear, unifying function. The lack of cohesive pathway or shared biological theme, plus obsolete terms and zero edges, suggests these proteins do not form a functionally coherent cluster. ","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0033089","count":2}]},{"hash":"546764392492423788","title":"Ubiquitin-Proteasome Degradation","description":"The top terms are dominated by ubiquitin-dependent protein catabolic processes and protein polyubiquitination, including SCF-dependent proteasomal degradation and ERAD, indicating strong involvement of the ubiquitin-proteasome system in this cluster. A few terms related to arsenic response, synapse assembly, circadian regulation, and neuronal apoptosis appear, but they are likely secondary or context-specific.","confidence":"High","size":23,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0046685","count":4}]},{"hash":"2198495017819463127","title":"Metabolism and cell-cycle regulation","description":"The top GO terms indicate a mix of biosynthetic and metabolic processes (hydrogen sulfide biosynthesis, cysteine biosynthesis, GTP and gluconeogenesis) alongside cell-cycle regulation (mitotic metaphase/anaphase transition), stress/response cues (glucose starvation, interleukin-4 response), and general growth-related functions (nuclear import, magnesium transport, protein tetramerization). This suggests a cluster of proteins coordinating metabolism and energy state with cell-cycle control and intracellular transport, justifying the label.","confidence":"Medium","size":23,"edges":88,"triangles":234,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070814","count":10},{"id":"GO:0030071","count":10},{"id":"GO:0045722","count":10},{"id":"GO:0006535","count":10},{"id":"GO:0006183","count":10}]},{"hash":"2249689033924501307","title":"Ubiquitin-Proteasome Degradation and Protein Assembly","description":"The cluster is dominated by ubiquitin-dependent protein degradation terms (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; ubiquitin-dependent protein catabolic process) and includes protein homooligomerization, pointing to regulated turnover and assembly of protein complexes. Developmental and cell-cycle terms appear as secondary connections, suggesting broader roles in growth and division but the core signal centers on proteostasis and complex formation. ","confidence":"High","size":23,"edges":6,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0000742","count":3},{"id":"GO:0019800","count":3}]},{"hash":"516949273906472434","title":"Rho/GTPase signaling with actin remodeling","description":"These proteins show enrichment for GTPase-related regulation (Rho and Ras pathways, positive regulation of GTPase activity) and actin cytoskeleton dynamics (actin filament binding), pointing to a shared function in signaling that drives cytoskeletal remodeling. While terms also touch on broader developmental and immune processes (synaptic plasticity, heart development, B cell differentiation), the core theme is GTPase-driven control of the cytoskeleton, which underpins structural changes in cells and signaling. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":4},{"id":"GO:0002316","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0032959","count":3}]},{"hash":"875209043694421487","title":"Methylation and chromatin regulation in development","description":"These proteins appear enriched for various methylation activities (rRNA, tRNA wobble, peptidyl-lysine, N-terminal methylation) and heterochromatin formation, plus transcriptional regulation (DNA-templated transcription) and developmental processes. This combination points to a thematic cluster focused on methylation-driven chromatin state changes that influence gene expression during development, with some peripheral metabolic-related terms. ","confidence":"Medium","size":23,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031167","count":5},{"id":"GO:0000183","count":5},{"id":"GO:0018027","count":4},{"id":"GO:0016049","count":4},{"id":"GO:0006351","count":3}]},{"hash":"1701343552586032579","title":"Developmental transcription and stress signaling regulators","description":"This cluster is dominated by GO terms linking transcription (DNA-templated transcription) and development (heart development, labyrinthine layer development) as well as signaling regulation (negative regulation of JNK cascade) and cytoskeletal dynamics (filopodium assembly). The presence of stress/chemical-response terms (response to cocaine, response to toxic substance) reinforces a theme of developmental regulation intertwined with signaling and environmental responsiveness, with a few metabolism-related terms that may be peripheral. Overall, the proteins seem to function as regulators coordinating development and cellular signaling rather than as a single metabolic pathway.","confidence":"Medium","size":23,"edges":4,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0046329","count":3},{"id":"GO:0016126","count":2}]},{"hash":"2096355079133717939","title":"Cytoskeleton Dynamics and Cell Signaling","description":"Top terms point to cytoskeletal regulation and cell migration (neutrophil chemotaxis, negative chemotaxis, Rho/GTPase signaling, mitotic spindle assembly) with ubiquitination as a shared regulatory mechanism. While some terms touch on skin development, lipid signaling, and transcription, the strongest signal is signaling and remodeling of the cytoskeleton that drives movement and division.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050919","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0035024","count":3}]},{"hash":"184094853493759210","title":"Lipid and Steroid Metabolism","description":"The cluster prominently features lipid-related biosynthetic and metabolic processes, including mycolic acid biosynthesis, very long-chain fatty acid biosynthesis, and 3-keto-sphinganine metabolism. It also includes retinoid metabolism (retinal, retinol) and steroid hormone pathways (C21-steroid metabolism, estrogen biosynthesis, androgen catabolic). This combination points to a cohesive theme around lipid, retinoid, and steroid metabolism rather than a single specific enzyme function. Confidence: Medium","confidence":"","size":23,"edges":47,"triangles":39,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0071768","count":9},{"id":"GO:0042574","count":9},{"id":"GO:0006666","count":9},{"id":"GO:0042572","count":9}]},{"hash":"1543797119716550281","title":"Neural development and immune signaling","description":"This cluster is enriched for neural development terms (neuron development, cerebellar cortex development, dendritic spine morphogenesis) and immune signaling terms (innate immune response, positive regulation of interferon-beta production), with some cell-cycle related annotations (kinetochore localization, regulation of CDK activity) that may accompany developmental processes. The dominant theme appears to be neural development with accompanying immune modulation, justifying this label.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":10},{"id":"GO:0045736","count":10},{"id":"GO:0021695","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0045087","count":9}]},{"hash":"1843805179735555186","title":"Chemical stress and growth factor signaling","description":"This cluster centers on GO terms for responses to toxic substances, estradiol, and ethanol, plus toxin catabolic processes and growth factor stimuli (EGF), with additional notes on regeneration and vacuolar acidification. The common thread is cellular adaptation to chemical stress coupled with hormone/ growth-factor\u2013mediated signaling.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0032355","count":2},{"id":"GO:0009407","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0007035","count":2}]},{"hash":"1000121720179013025","title":"Brain Development and Neural Differentiation","description":"This cluster is dominated by GO terms related to brain development, hippocampus development, and neural differentiation (e.g., brain development, hippocampus development, asymmetric neuroblast division), suggesting proteins involved in neural development and neurogenesis. Other terms mentioning mitochondrial distribution and signaling are compatible with neuronal function but do not override the neural-development theme.","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048312","count":3},{"id":"GO:0045657","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0055059","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1520390828548931511","title":"Neurodevelopment and sensory organ morphogenesis","description":"The top GO terms point to development across nervous system and sensory organs (cerebellum and inner ear development, retinal ganglion cell axon guidance, visual perception) as well as general cell morphogenesis and signaling, suggesting a broad theme of tissue-specific developmental processes rather than a single pathway. The lack of edges indicates these proteins map to diverse developmental roles rather than a tightly connected module.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0048839","count":2}]},{"hash":"449030403474469190","title":"Core metabolism and gene expression","description":"The terms point to core metabolism (threonine biosynthesis, fatty-acid metabolism, triglyceride synthesis) and essential gene-expression machinery (translation, DNA replication, mitochondrial tRNA charging), suggesting a label for a general \u201ccore metabolism and translation\u201d cluster. Some immune-related annotations (response to antibiotic, muramyl dipeptide) may reflect cross-species annotation noise.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0032000","count":2},{"id":"GO:0019432","count":2},{"id":"GO:0071225","count":2}]},{"hash":"320862004452652971","title":"Neural development and synaptic maturation","description":"GO terms converge on brain development, neurite/filopodium assembly, synapse formation and plasticity, corpus callosum development, and regulation of myelination and neuroendocrine signaling (retinoic acid, thyroid hormone). An isolated term on activated T cell proliferation is likely noise and not central to the cluster\u2019s core function. Overall, the cluster represents neural development and synaptic maturation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0036010","count":2},{"id":"GO:0048170","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0050798","count":2}]},{"hash":"1777259152106076819","title":"Neural development and glial migration","description":"Top terms converge on brain development and neural cell migration, especially radial glia\u2013guided cortical migration, plus GTPase- and IGF-signaling that regulate cell motility. Some terms like cell wall organization or neutrophil regulation are less related, but the core theme is neural development and brain cell movement.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0071555","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0030097","count":2}]},{"hash":"455836970107818453","title":"Vesicle transport and cell division","description":"The cluster centers on intracellular transport between the ER and Golgi (anterograde and retrograde), plus mRNA transport and mitotic spindle assembly/cell division, with a hint of regulation via GTPases. While tissue-specific development terms (retina/brain/gonad) are present, the dominant theme is vesicle trafficking and cell cycle processes, suggesting a functional grouping around transport and mitosis rather than a single tissue program.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0006888","count":3}]},{"hash":"135928966535707645","title":"Rho/Rac GTPase Regulation in Neural Remodeling","description":"This cluster is enriched for terms centered on how Rho family GTPases (Rac, Rho) are regulated (positive GTPase activity, negative Rac/Rho signaling) and linked to neural remodeling processes such as dendritic spine modification, neurotransmitter receptor transport to the postsynaptic membrane, and aspects of neural development (radial glia migration, morphogenesis). The co-occurrence of these cytoskeletal and neuronal development terms suggests a common theme of cytoskeletal dynamics governed by Rho/Rac signaling in neural contexts, with some apoptotic and developmental signaling present but not primary. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0045671","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0098887","count":2}]},{"hash":"1379438762859461368","title":"Iron Uptake and Endocytosis","description":"The top GO terms point to membrane-associated iron handling, with iron import across the plasma membrane, transferrin transport, and receptor-mediated endocytosis being prominent. This suggests a functional cluster centered on iron acquisition and trafficking via endocytic routes. Additional terms related to phospholipid translocation and vacuolar protein turnover fit within membrane dynamics, while the plant-growth term appears peripheral. Overall, the cluster is best described by iron uptake and endocytic transport.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":2},{"id":"GO:0098707","count":1},{"id":"GO:0006898","count":1},{"id":"GO:0033572","count":1},{"id":"GO:0010081","count":1}]},{"hash":"1756451087367035337","title":"Developmental Morphogenesis and Cytoskeletal Signaling","description":"The top GO terms flag organ development (heart, midbrain, imaginal disc morphogenesis) and cytoskeletal dynamics (GTPase activation, filopodium assembly), suggesting a cohesive theme of morphogenesis guided by signaling and cytoskeletal remodeling; regulatory terms related to vessel remodeling and immune processes appear as secondary modifiers within developmental contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:1904693","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0090630","count":3}]},{"hash":"2257136897190963926","title":"Neural development signaling and vesicle trafficking","description":"This cluster centers on neural development processes (dendritic spine formation, radial glial differentiation) and cytoskeletal/adhesion remodeling (podosome assembly) linked with small GTPase signaling (Rap pathway) and intracellular trafficking (Golgi transport, endosome-to-lysosome transport). The mix suggests proteins coordinating neural signaling with cytoskeletal dynamics and vesicle trafficking, with apoptosis terms reflecting broader cell fate regulation.","confidence":"Medium","size":22,"edges":21,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071803","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0060999","count":4},{"id":"GO:0021861","count":3},{"id":"GO:0032486","count":3}]},{"hash":"1803591795386003581","title":"Chromatin Remodeling and Telomere Regulation","description":"This cluster centers on chromatin-level processes (nucleosome assembly, histone modification activities) and DNA structure/dynamics (G-quadruplex DNA, telomeric D-loop regulation), suggesting coordinated regulation of chromatin and telomere maintenance. Some terms are obsolete, but the core themes point to chromatin organization and telomere dynamics. ","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0071919","count":2},{"id":"GO:1905615","count":2},{"id":"GO:0009301","count":2},{"id":"GO:0035066","count":2}]},{"hash":"21641134337037336","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":60,"triangles":67,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000480","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0000472","count":4}]},{"hash":"1292677479113024511","title":"DNA Repair and Oxidative Stress Response","description":"This cluster centers on genome integrity maintenance under stress, with GO terms for oxidative stress response, UV-damage excision repair, and DNA replication-related processes (leading strand elongation). Some terms (photosystem II repair, development) are peripheral but may reflect broader stress or organelle maintenance roles. Overall, the theme is DNA repair and cellular stress responses.","confidence":"Medium","size":22,"edges":29,"triangles":8,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":2},{"id":"GO:0006044","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0016485","count":1},{"id":"GO:0006272","count":1}]},{"hash":"1724999174207645659","title":"Developmental Growth and Proliferation","description":"This cluster is enriched for mitotic cell cycle and developmental terms, including embryonic organ development, multicellular organism growth, and cell population proliferation, pointing to a theme of growth and proliferation during development. Supporting signals such as positive regulation of GTPase activity, kinase signaling, and protein autophosphorylation suggest coordinated signaling cascades that drive cell division and growth. The presence of mRNA transport and cellular hypoxia response indicates additional regulation of gene expression and stress adaptation in developing tissues. Overall, the proteins likely participate in developmentally regulated cell proliferation and associated signaling pathways.","confidence":"Medium","size":22,"edges":12,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0071902","count":6}]},{"hash":"34104394779828747","title":"Amino acid metabolism with transcription regulation","description":"The dominant GO terms point to amino acid biosynthesis and catabolism (alanine, tyrosine, lysine, oxaloacetate), with a secondary signal for transcriptional regulation (DNA-templated transcription and Notch signaling), implying a metabolic cluster that also interfaces with gene regulation.","confidence":"Medium","size":22,"edges":173,"triangles":953,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006107","count":11},{"id":"GO:0042853","count":10},{"id":"GO:0019878","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0006571","count":10}]},{"hash":"1298905642123544393","title":"Diverse biosynthetic metabolism cluster","description":"Renders a broad metabolic theme: GO terms include glucose metabolic process, thiamine, valine and isoleucine biosynthesis, myo-inositol hexakisphosphate biosynthetic process, and ADP-L-glycero-beta-D-manno-heptose biosynthesis, plus a transcription-related term. The Edges: 0 indicates little inferred network structure, suggesting these proteins collectively touch multiple, distinct biosynthetic pathways rather than a single module. Thus a label capturing broad biosynthetic metabolism best describes the cluster without implying a specific pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006006","count":2},{"id":"GO:0010510","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1514205170021104515","title":"Mitochondrial metabolite transport and energy metabolism","description":"The prominent GO terms point to transport of various metabolites and cofactors across membranes (ADP, phosphate, glycine, ornithine, heme, CoA), coupled with mitochondrial-specific processes such as the malate-aspartate shuttle and apoptotic mitochondrial changes, as well as fatty acid response, suggesting a cohesive theme of mitochondrial metabolite transport and energy metabolism.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":4},{"id":"GO:0035349","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0000066","count":3},{"id":"GO:0015886","count":3}]},{"hash":"189984015328272049","title":"Spliceosome and RNA processing","description":"This cluster is dominated by RNA processing and splicing terms (mRNA processing, RNA splicing, spliceosomal tri-snRNP complex assembly), with multiple terms pointing to the spliceosome and mRNA maturation. A few other GO terms (cell cycle, cell wall biogenesis) appear only once and likely reflect noise or distant connections. Thus the core theme is RNA splicing and processing.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0000055","count":1},{"id":"GO:0061101","count":1},{"id":"GO:0043666","count":1},{"id":"GO:0000082","count":1}]},{"hash":"257048854840586488","title":"Translation and tRNA charging with vacuolar trafficking","description":"Top GO terms point to core translation and tRNA processing/aminoacylation (GO:0006412, GO:0006400, GO:0006425, GO:0006424), with supporting energy/redox context and vacuolar trafficking signals (GO:0007033, GO:0006623). This suggests a cluster centered on protein synthesis machinery, with related intracellular transport and basic ion homeostasis roles.","confidence":"Medium","size":22,"edges":129,"triangles":301,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042777","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0035335","count":2},{"id":"GO:0006400","count":1}]},{"hash":"116483602396878035","title":"GTPase signaling and actin cytoskeleton regulation","description":"The cluster shows a strong enrichment of small GTPase\u2013mediated signaling terms (Rho, Ras) and regulation of GTPase activity, together with actin cytoskeleton organization, indicating a cohesive module governing cytoskeletal dynamics through GTPase pathways. Insulin/IGF signaling terms appear but likely reflect broader signaling cross-talk rather than core metabolism, with the primary theme being GTPase-driven cytoskeletal remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0030036","count":3}]},{"hash":"1630371837225896677","title":"Translation machinery and stress response","description":"The cluster is dominated by ribosome/translation-related terms (translation, translational initiation, ribosomal subunit export) and ubiquitin-dependent protein turnover, indicating core protein synthesis and quality control. The presence of xenobiotic/antibiotic response terms and proliferation-related terms (cell division, glial cell proliferation) suggests a broader link to growth and stress responses alongside translation machinery.","confidence":"Medium","size":22,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0043149","count":2},{"id":"GO:0042787","count":2}]},{"hash":"693101037509548809","title":"Translation initiation and preinitiation complex assembly","description":"The strongest signals in this cluster come from translation-related GO terms, especially translation reinitiation and formation of the translation preinitiation complex, implying these proteins coordinate the start of protein synthesis. Other terms (transcription, ubiquitin-dependent degradation, muscle differentiation) suggest broader roles in gene expression and muscle development, but translation initiation is the most coherent core function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0035914","count":2}]},{"hash":"659338016991118889","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0000447","count":3}]},{"hash":"1582855637371804327","title":"Lipid Metabolism and Immune Signaling","description":"The top GO terms point to lipid metabolism (fatty acid oxidation, cholesterol biosynthetic process) alongside immune signaling (innate immune response, regulation of cytokine production). Additional hormone-related responses (peptide hormone stimulus, follicle-stimulating hormone stimulus) and stress responses (response to toxic substance) suggest a core theme of metabolic and immune/hormonal stress signaling. Some terms like DNA repair and cell division appear as more general cellular maintenance processes, but they do not override the primary lipid-immune signal pattern. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019395","count":2},{"id":"GO:0071375","count":2},{"id":"GO:1900015","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1647468243980602868","title":"Intracellular and organelle transport","description":"The top GO terms are dominated by transport-related processes across membranes and into organelles (transmembrane transport of ions; teichoic acid transport; heme transport; oligopeptide export from mitochondrion; long-chain fatty acid import into peroxisome). While there are a few stress-related and degradation terms, the common thread across the cluster is molecular trafficking and movement of substances within the cell and into organelles, making this a representative, specific label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0099133","count":2},{"id":"GO:0015777","count":2}]},{"hash":"608473454454494563","title":"Unknown","description":"The top GO terms include both nuclear processes (DNA repair, mitotic cell cycle) and various vesicle trafficking/exocytosis functions (secretory pathways, Golgi vesicle fusion, neurotransmitter secretion), with no single unifying function tying all proteins together. This mixed signal makes a cohesive, specific cluster label unlikely.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0030073","count":1},{"id":"GO:0045955","count":1}]},{"hash":"2002774174964512015","title":"Cell Growth and Division Machinery","description":"The cluster centers on core cell-cycle and cytoskeletal processes (cell growth, spindle assembly, nucleosome assembly, and actin filament bundle assembly). It also includes signaling-related terms (Wnt pathway, SA node electrical regulation, chemokine production), suggesting broader regulation, but the dominant theme across GO terms is growth/division coupled with cytoskeletal dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":4},{"id":"GO:0051225","count":3},{"id":"GO:0006334","count":2},{"id":"GO:0010650","count":2},{"id":"GO:0051017","count":2}]},{"hash":"461393290928395742","title":"Fungal biofilm formation and cell wall polysaccharide catabolism","description":"This cluster is strongly enriched for fungal-related processes: biofilm formation on inanimate substrates and on hosts, along with multiple polysaccharide catabolic pathways (cellulose, xylan, mannan, beta-glucan) and fungal cell wall remodeling. The presence of ergosteryl 3-beta-D-glucoside catabolic activity further supports fungal-specific metabolism, making a fungal biofilm/cell wall degradation theme a coherent explanation. Some transcription-related terms may reflect background annotation rather than core function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0044011","count":2},{"id":"GO:1904462","count":2},{"id":"GO:0045493","count":2},{"id":"GO:1904541","count":2}]},{"hash":"1547324152645272217","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around neural development and synaptic function: axonogenesis, long-term potentiation, excitatory postsynaptic potential, and visual perception indicate neural maturation and signaling. Schwann cell development and heart development reflect broader developmental roles, while mitotic cell cycle and DNA replication hint at proliferating progenitors. Taken together, the dominant theme is neural development with synaptic activity, so the label is appropriate.","confidence":"Medium","size":21,"edges":34,"triangles":24,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":11},{"id":"GO:0060079","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0000086","count":9}]},{"hash":"941260631136922641","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The strongest signals are ubiquitin-dependent protein catabolic processes, SCF-dependent proteasomal degradation, and protein polyubiquitination, indicating a core function in tagging and degrading proteins via the proteasome. Additional terms like arsenic response, synapse assembly, circadian regulation, and neuronal apoptotic signaling likely reflect context-specific stress or neuronal regulation, but the central theme is proteostasis through ubiquitination.","confidence":"High","size":21,"edges":12,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0031146","count":11},{"id":"GO:0000083","count":10},{"id":"GO:0000209","count":10},{"id":"GO:0046685","count":9}]},{"hash":"859243021497256159","title":"Hippocampal neuron development and signaling","description":"The top GO terms cluster around hippocampus development, dendrite morphogenesis, axonogenesis regulation, and calcium-dependent exocytosis, suggesting a group of proteins involved in neuronal differentiation and synaptic function in the hippocampus. Additional terms related to MAPKK signaling and focal adhesion regulation support a broader theme of neuronal development and connectivity, with a few terms (ossification and mitotic cycle) that may reflect shared developmental pathways or pleiotropy. Overall, these proteins appear to contribute to hippocampal neuron development and synaptic signaling.","confidence":"Medium","size":21,"edges":10,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0043931","count":3}]},{"hash":"759848478421525526","title":"ECM Remodeling in Development","description":"Top terms cluster around extracellular matrix breakdown (collagen catabolic, basement membrane disassembly) and peptide catabolism (neuropeptide, bradykinin), plus morphogenetic processes (bone remodeling, epithelial tube branching in lung morphogenesis, decidualization). The common thread is proteolytic remodeling of the extracellular matrix driving morphogenesis across tissues, rather than a single tissue-specific function. Hence ECM Remodeling in Development.","confidence":"Medium","size":21,"edges":121,"triangles":406,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":5},{"id":"GO:0045453","count":5},{"id":"GO:0001957","count":5},{"id":"GO:0030574","count":5},{"id":"GO:0046697","count":5}]},{"hash":"602826185636008880","title":"Tissue differentiation and organ development","description":"The proteins are enriched for GO terms relating to development and differentiation across multiple tissues (uterus, lung type II pneumocytes, male gonad, parathyroid, cardiac muscle, spinal cord interneurons, eosinophils) and include roles in regulating TGF-beta production, pointing to a shared function in guiding tissue-specific differentiation and organ development rather than a single tissue pathway. ","confidence":"High","size":21,"edges":12,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":8},{"id":"GO:0060510","count":8},{"id":"GO:0008584","count":6},{"id":"GO:0060017","count":5},{"id":"GO:0061026","count":5}]},{"hash":"1796077642527719249","title":"Neuroendocrine signaling and erythropoiesis","description":"The top GO terms mix neuroendocrine/metabolic signaling (dopamine catabolic process, cellular response to cAMP, response to xenobiotic/ethanol) with hematopoietic differentiation (regulation and positive regulation of erythrocyte and megakaryocyte differentiation) and pituitary development, suggesting a theme where hormone/neurotransmitter signaling interfaces with blood cell development and detox responses.","confidence":"Medium","size":21,"edges":49,"triangles":41,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042493","count":7},{"id":"GO:0042420","count":6},{"id":"GO:0042135","count":6},{"id":"GO:0010725","count":6},{"id":"GO:0045654","count":6}]},{"hash":"1373999447889097654","title":"Amino acid catabolism and related metabolism","description":"The top GO terms are dominated by amino acid catabolic processes (threonine, alanine, kynurenine) and related metabolic activities (serine biosynthesis, histidine biosynthesis, retinol and ethanol metabolism, organic phosphonate catabolism), suggesting a metabolic cluster centered on amino acid degradation and associated pathways. The Notch signaling term appears among the top terms but is less representative of the overall theme, which is primarily metabolic. Therefore, the label reflects the core function of the cluster though with some annotation noise.","confidence":"Medium","size":21,"edges":101,"triangles":285,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019518","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0007219","count":7},{"id":"GO:0042853","count":7},{"id":"GO:0097053","count":7}]},{"hash":"517497179528668616","title":"Mitotic regulation and transcription control","description":"The cluster is enriched for mitotic cell cycle and DNA-templated transcription, pointing to roles in cell-cycle progression and nuclear gene expression. Additional terms like positive regulation of GTPase activity, protein homooligomerization, and ER-to-Golgi transport suggest broader coordination of signaling and protein processing during proliferation and development, supporting a cohesive theme around cell-cycle\u2013coupled transcription and trafficking.","confidence":"High","size":21,"edges":11,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0006888","count":6},{"id":"GO:2001162","count":5},{"id":"GO:0007275","count":5}]},{"hash":"1838465618976350453","title":"Nuclear import and chromosome segregation control","description":"Most terms center on importing proteins into the nucleus (NLS-bearing import, ribosomal protein import) and on cell-cycle\u2013related chromosome dynamics (regulation of DNA replication, spindle elongation, sister chromatid separation, etc.). This points to a cohesive function in nuclear transport coupled with mitotic/meiotic chromosome segregation, with a minor, possibly incidental, proton transport term. ","confidence":"High","size":21,"edges":15,"triangles":12,"max_degree":6,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0006275","count":6},{"id":"GO:0033674","count":6},{"id":"GO:0060561","count":6}]},{"hash":"960127278054462854","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":201,"triangles":1179,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000472","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0006406","count":4}]},{"hash":"915287243556358674","title":"Embryonic morphogenesis and growth regulation","description":"This cluster is enriched for embryonic morphogenesis terms (cranial skeleton, placenta, and heart/tricuspid valve morphogenesis) along with broader ideas of developmental growth and its regulation (e.g., regulation of developmental growth, positive regulation of cell growth). Supporting signaling and adhesion terms (PI3K/AKT pathway, actin filament binding, cell-matrix adhesion) fit with tissue morphogenesis and morphogenetic processes, pointing to a cohesive theme of embryonic development and growth regulation. Some immune-related terms appear but are less central to the core theme. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":2},{"id":"GO:0060669","count":2},{"id":"GO:1904531","count":1},{"id":"GO:0050798","count":1},{"id":"GO:0061387","count":1}]},{"hash":"918341029897922145","title":"Ubiquitin-proteasome\u2013mediated degradation and cell cycle control","description":"This cluster is dominated by ubiquitin-dependent proteolysis terms (ubiquitin-dependent protein catabolic process and SCF-dependent proteasomal ubiquitin-dependent protein catabolic process), pointing to proteasome-mediated turnover. The presence of mitotic G1 DNA damage checkpoint signaling and regulation of DNA-templated DNA replication initiation suggests coordination with cell-cycle progression, especially G1/S transitions. Additional terms about circadian rhythm and environmental stress responses may reflect broader regulation of cellular timing and stress signaling linked to proteostasis.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0031146","count":12},{"id":"GO:0031571","count":12},{"id":"GO:1902916","count":12},{"id":"GO:0000083","count":12}]},{"hash":"1949447714621084795","title":"RNA processing and post-transcriptional gene silencing under stress","description":"The proteins are enriched for RNA metabolism and post-transcriptional regulation terms, including stress granule assembly, mRNA destabilization, post-transcriptional gene silencing, and miRNA-mediated silencing, plus ribosomal subunit export and rRNA processing. While a couple of terms relate to stress signaling or broader cellular processes (e.g., cardiac hypertrophy in response to stress, locomotion), the dominant theme is RNA processing and RNA-based regulation, especially under stress. This supports a cohesive label around RNA processing and post-transcriptional gene silencing in stress contexts.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014898","count":2},{"id":"GO:0031987","count":2},{"id":"GO:1900246","count":1},{"id":"GO:0034063","count":1},{"id":"GO:0061157","count":1}]},{"hash":"2191421798412010402","title":"Translation and ribosome biogenesis","description":"This cluster is enriched for GO terms related to translation (initiation, elongation, translation itself, and frameshifting) and assembly of ribosomal subunits, indicating members of the protein-synthesis machinery and ribosome biogenesis pathways. A couple of metabolic terms are present but far less represented, suggesting the core theme is translation-related.","confidence":"High","size":21,"edges":167,"triangles":894,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0045905","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0006414","count":1},{"id":"GO:0006413","count":1}]},{"hash":"1696408828654678845","title":"Vacuolar amino acid transport","description":"The cluster shows strong signals for transport of multiple amino acids (proline, histidine, asparagine, glutamine, tyrosine) across membranes and specifically into or out of vacuoles, suggesting proteins involved in vacuolar amino acid transport. A few terms also touch on detoxification, but the amino acid transport theme is the clearest common function. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0015824","count":1},{"id":"GO:0089708","count":1},{"id":"GO:0051365","count":1},{"id":"GO:1901481","count":1}]},{"hash":"1622086655269201914","title":"Notch-driven transcription in angiogenesis","description":"The presence of membrane protein ectodomain proteolysis points to Notch-like receptor activation, which links proteolytic processing to transcriptional regulation. Coupled with GO terms for DNA-templated transcription, regulation of DNA binding, and the explicit angiogenesis term, the cluster appears to reflect signaling-triggered transcriptional programs that promote angiogenesis. Some auxiliary terms (ER stress, redox homeostasis) may be secondary to general cellular stress responses but do not define the main theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006509","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0043388","count":1},{"id":"GO:0006662","count":1}]},{"hash":"997060587270516882","title":"Histone modification and chromatin assembly","description":"The top GO terms are dominated by histone modification (methylation/trimethylation/dimethylation of H3 and H4) and nucleosome assembly, pointing to a core function in chromatin organization and epigenetic regulation. While a few developmental terms appear (heart development, uterine gland development) they are less represented and may reflect broader regulatory roles rather than a primary cluster function. Thus, a concise label emphasizing chromatin regulation best fits the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0051567","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0097676","count":1},{"id":"GO:0032635","count":1}]},{"hash":"2230242974795934731","title":"Xenobiotic stress and cytoskeletal remodeling","description":"The cluster is enriched for responses to xenobiotic stimuli and cocaine, plus hyperosmotic stress, and includes terms related to cytoskeletal dynamics (filopodium assembly, substrate adhesion-dependent spreading). While transcription and cell-cycle terms appear, the dominant signal ties environmental/chemical stress to cytoskeletal remodeling and cell\u2013substrate interactions.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0045793","count":4},{"id":"GO:0006972","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0010510","count":3}]},{"hash":"565376500699409511","title":"Rho/PI3K signaling in development and cell cycle","description":"The cluster\u2019s top GO terms center on regulation of Rho signaling, PI3K/AKT\u2013related pathways, angiogenesis, heart development, and cell cycle progression, with a couple of plant- or obsolete-terms that appear less connected. This suggests a cohesive theme around signaling pathway regulation that influences development and cell cycle dynamics, though some terms are outliers. Confidence: Medium","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0045766","count":2}]},{"hash":"1946886632293204442","title":"Actin Cytoskeleton Remodeling and Signaling","description":"This cluster is dominated by GO terms that describe actin dynamics and its regulation: actin filament branching, podosome assembly, small GTPase\u2013mediated signaling, and positive regulation of membrane addition at cytokinesis. Additional terms for phagocytic engulfment, mitochondrion inheritance, and synapse plasticity further tie to cytoskeletal remodeling and membrane trafficking. While some terms are broader (e.g., nuclear export), the strongest, recurring theme is actin-driven restructuring and signaling that governs cell movement, division, and membrane remodeling.","confidence":"Medium","size":20,"edges":14,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:0007107","count":4},{"id":"GO:0043652","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0071803","count":4}]},{"hash":"1502182519475637303","title":"Synaptic development and plasticity","description":"This cluster is enriched for neuronal functions, notably dendritic spine morphogenesis and long-term synaptic potentiation, indicating a role in synaptic development and plasticity. Supporting signals include insulin receptor and PDGF receptor pathways, suggesting broader neuronal signaling involvement. While there are also terms for mitotic cell cycle and innate immunity, the neuron-specific themes are most prominent, making this label representative of the cluster\u2019s core function.","confidence":"Medium","size":20,"edges":55,"triangles":51,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000492","count":2}]},{"hash":"1683248448952543315","title":"Developmental growth and adhesion signaling","description":"The top GO terms converge on developmental growth and tissue remodeling: positive regulation of cell-matrix adhesion, myoblast fusion, axonogenesis, and growth-factor signaling via PDGF and VEGF receptors. The presence of mitotic cell cycle terms also points to proliferation accompanying growth. A couple of obsolete phosphorylation terms appear as noise but do not alter the main theme. Overall, the cluster reflects developmental growth and adhesion signaling.","confidence":"High","size":20,"edges":24,"triangles":6,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001954","count":20},{"id":"GO:0000278","count":20},{"id":"GO:0048638","count":20},{"id":"GO:0007520","count":20},{"id":"GO:0021952","count":20}]},{"hash":"305221397163054389","title":"Unknown","description":"The top GO terms are highly heterogeneous (pinocytosis regulation, lung development, telomerase assembly, root meristem growth, hormone signaling, pericentriolar material localization, etc.), with no clear, shared biological process or pathway linking the proteins. There isn\u2019t a coherent theme to assign a specific functional label, so Unknown is appropriate.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048549","count":2},{"id":"GO:0060430","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0010449","count":1},{"id":"GO:0048642","count":1}]},{"hash":"114977778695096413","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061408","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000462","count":2}]},{"hash":"981768458711123075","title":"Lipid and Steroid Metabolism","description":"The top GO terms cluster around metabolic processes, notably sex steroid metabolism (androgen metabolic process, testosterone biosynthetic process) and lipid-related pathways (retinal/retinol metabolism, mycolic acid biosynthesis, 3-keto-sphinganine metabolism), with acetoin catabolism also present. This suggests a general metabolic cluster with emphasis on lipid/steroid pathways, though some terms (antibiotic response, sporulation) are peripheral to the core theme. ","confidence":"Medium","size":20,"edges":11,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0008209","count":7},{"id":"GO:0061370","count":7},{"id":"GO:0045150","count":7},{"id":"GO:0046677","count":6}]},{"hash":"1553510253619602267","title":"Cell Signaling and Growth Control via Phosphorylation","description":"The cluster centers on regulation of GTPase activity, serine/threonine kinase activity (including autophosphorylation), TORC1 signaling, and mitotic cell cycle control, pointing to phosphorylation-driven signaling that governs growth and cell division. Additional terms like mRNA transport and protein oligomerization suggest broader regulatory context, but the dominant pattern is kinase- and GTPase-mediated signaling tied to growth and mitosis.","confidence":"High","size":20,"edges":14,"triangles":8,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0071456","count":6},{"id":"GO:0071902","count":6}]},{"hash":"586786300086531210","title":"Cell cycle, transcription, and dendrite morphogenesis signaling","description":"The dominant terms point to DNA-templated transcription, replication, and centrosome cycling, along with microtubule localization and dendrite morphogenesis, all joined by signaling pathways like JNK. This suggests a cohesive theme of coordinating cell cycle progression and cytoskeletal dynamics with neuronal morphogenesis and related signaling, with a few peripheral immune-related terms.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0048813","count":13},{"id":"GO:0010571","count":12},{"id":"GO:0006260","count":12},{"id":"GO:0045087","count":12}]},{"hash":"853232852829366527","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":92,"triangles":213,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000462","count":8},{"id":"GO:0000398","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0048568","count":5},{"id":"GO:0000472","count":5}]},{"hash":"2148739887267077924","title":"Developmental Signaling and Differentiation","description":"This cluster centers on developmental processes and signaling regulation, with GO terms such as brain development and skeletal muscle cell differentiation, alongside TGF-beta response, B cell receptor signaling, and regulation of phosphorylation and GTPase activity. This suggests proteins involved in signaling cascades that govern differentiation and development rather than a single coherent pathway, hence a broadly developmental signaling label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051016","count":3}]},{"hash":"350678130210059039","title":"Neural development and RNA processing","description":"This cluster shows several neural development terms (forebrain development, neural tube closure, embryonic cranial skeleton morphogenesis), indicating a neural development focus. It also includes RNA-related processes (mRNA processing, miRNA processing) and translational control (regulation of translation initiation by eIF2\u03b1 phosphorylation) suggesting gene-expression regulation during development. The combination points to a cohesive theme around neural development with RNA-level regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035066","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0000082","count":2}]},{"hash":"1977793507325590230","title":"Rho/Rac GTPase Cytoskeletal Signaling in Immunity","description":"The GO terms cluster around small GTPase signaling (Rac/Rho) and cytoskeletal dynamics (filopodium assembly), plus immune-related processes such as B cell affinity maturation and IL-4 production, suggesting a module of signaling that regulates the cytoskeleton in immune contexts. A few terms about insulin and estrogen receptor pathways indicate broader signaling cross-talk but do not override the core pattern.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002344","count":2},{"id":"GO:0098761","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0035020","count":2},{"id":"GO:0035023","count":2}]},{"hash":"81929098779452062","title":"MAPK signaling in neural development","description":"The Top Terms center on MAPK pathway activity (ERK cascade, JUN kinase) and growth factor signaling (VEGF, PDGF), paired with neural development and plasticity processes (cortical layer formation, long-term potentiation, myoblast fusion, multicellular development). This suggests a cohesive theme of MAPK-mediated signaling governing neural development and activity-dependent plasticity, with some broader development processes included.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035924","count":3},{"id":"GO:0007257","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0070371","count":3},{"id":"GO:0036120","count":3}]},{"hash":"1091247883218130406","title":"EGF Signaling and GTPase Regulation","description":"This cluster is dominated by GO terms pointing to epidermal growth factor\u2013stimulated signaling and downstream small GTPase pathways (Ras/Rho, GTPase activation), including PI3K/Akt and TORC2 signaling, which together suggest a cohesive growth factor\u2013driven signaling network that governs cytoskeletal dynamics and cell adhesion. A few terms like D-glucose transport and negative regulation of cell size appear peripheral to this core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0071364","count":4},{"id":"GO:0045792","count":4},{"id":"GO:0002291","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0015758","count":4}]},{"hash":"1702545807933536272","title":"Growth Factor Signaling and Neural Development","description":"The cluster\u2019s top GO terms center on growth-factor\u2013mediated signaling (VEGF/VEGF receptor-2, EGF stimulus) and downstream effects on neural processes, including synapse structure regulation and nervous system development, with some broader developmental terms. Although a few terms are less coherent, the dominant pattern links growth factor signaling to neural development and function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0035924","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0050803","count":2}]},{"hash":"187468094769742692","title":"Nuclear genome maintenance and transcription regulation","description":"These proteins share nuclear-associated functions: DNA replication and homologous recombination\u2013mediated repair, promoter binding and transcription regulation, and nuclear pore localization. Additional hints from GTPase activity regulation and kinase activity inhibition suggest coordinated control of nuclear signaling that modulates genome maintenance and transcription processes. Confident that this label captures the central theme, though some terms are more general. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0050679","count":3},{"id":"GO:0000724","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007568","count":2}]},{"hash":"904162237546670005","title":"Actin cytoskeleton remodeling and muscle contraction","description":"The top GO terms highlight actin filament movement, actin bundle assembly, and Arp2/3-mediated nucleation, together with skeletal muscle contraction, indicating a core theme of cytoskeletal dynamics and contractile function in this cluster. Although there are nuclear and signaling terms (lagging strand elongation, transcription regulation, TNF production), they appear less central, so the dominant theme is actin remodeling and muscle-type contraction.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006273","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0007275","count":1},{"id":"GO:0030048","count":1}]},{"hash":"2046045834525397284","title":"Developmental signaling and morphogenesis","description":"This cluster centers on organismal development and signaling pathways, with terms like midbrain morphogenesis, heart development, multicellular organism development, and regulation of Rho and insulin receptor signaling. Additional terms such as filopodium assembly and endosomal transport suggest associated membrane dynamics and cytoskeletal remodeling important for morphogenesis, with sterol biosynthesis as a supporting metabolic component. Overall, the proteins likely function in developmental signaling and morphogenetic processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0008286","count":4},{"id":"GO:1904693","count":3},{"id":"GO:0016126","count":3},{"id":"GO:0046847","count":3}]},{"hash":"1978947286771690019","title":"Rho GTPase Regulation and Ubiquitin-Proteasome Proteolysis","description":"The cluster highlights regulation of Rho and Rac GTPase signaling and activity (GO:0035023, GO:0043547, GO:0035021) along with ubiquitin-dependent protein catabolic processes (GO:0031146, GO:0042787) and SCF-dependent proteasomal degradation. The presence of apoptotic mitochondrial changes (GO:0008637) and developmental terms (spinal cord development, hemopoiesis) suggests a broader role in cytoskeletal signaling coupled to protein turnover and cell fate decisions, rather than a single pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0031146","count":2}]},{"hash":"1833554480187406855","title":"Spliceosome-driven mRNA processing","description":"The terms cluster around mRNA processing actions: cis and alternative splicing via the spliceosome, regulation of splicing, mRNA export from the nucleus, and mRNA stability in response to stress. This points to a cohesive module of RNA processing/spliceosome activity, with a minor note of ribosome biogenesis from the processome term. ","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0001824","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1903586","count":2}]},{"hash":"947931785527149704","title":"Signaling and Metabolic Regulation","description":"The GO terms cluster around general signal transduction (Rho signaling, GPCR desensitization, PI3K/AKT, insulin signaling) and transport/metabolism (glucose and sodium), with developmental and hematopoietic contexts (heart development, hematopoiesis, IL-7 response). This suggests a cohesive theme of signaling networks coupled to metabolic regulation across development and immune-related processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0007269","count":3},{"id":"GO:0015758","count":3},{"id":"GO:0008286","count":3}]},{"hash":"1890977126282434677","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0071035","count":1},{"id":"GO:1901917","count":1}]},{"hash":"2208072384841708734","title":"Proteoglycan Biosynthesis and Tissue Morphogenesis","description":"This cluster is dominated by GO terms for proteoglycan biosynthesis (chondroitin sulfate and heparin proteoglycans) and related precursor pathways (UDP-D-xylose metabolism), plus developmental processes like tissue morphogenesis, kidney morphogenesis, and lens transparency maintenance, as well as cell adhesion. These collectively point to extracellular matrix components and their role in developmental tissue structuring and cell\u2013cell interactions.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033319","count":2},{"id":"GO:0036438","count":2},{"id":"GO:0048729","count":2},{"id":"GO:0060993","count":2},{"id":"GO:0050650","count":2}]},{"hash":"924970683451914570","title":"Chloroplast Ion Transporters and Light Response","description":"This cluster is dominated by GO terms for transmembrane transport of ions and nutrients (phosphate, sodium, nitrate, sialic acid) and chloroplast-related functions (chloroplast organization, response to high light). Together these terms point to chloroplast-associated transport proteins that participate in light-driven processes. Some terms appear unrelated (e.g., necroptosis regulation), likely reflecting noise, but the core signal supports a chloroplast ion transport/light-response theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0016311","count":1},{"id":"GO:0009658","count":1},{"id":"GO:0009644","count":1}]},{"hash":"1367878925050220642","title":"Unknown","description":"The terms show two seemingly independent themes\u2014carbohydrate metabolism (fucose, glycoside, polysaccharide catabolic processes) and morphogenesis (heart and guard cell morphogenesis)\u2014with other scattered terms. The cluster lacks network structure (no edges/triangles) and spans multiple species contexts, so there isn't a cohesive, single function to summarize. Therefore the cluster is labeled Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":3},{"id":"GO:2000535","count":2},{"id":"GO:0016139","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0000272","count":2}]},{"hash":"600196806800616003","title":"Presynaptic Vesicle Exocytosis and Secretion","description":"The GO terms cluster around secretory vesicle trafficking and exocytosis, especially at presynaptic sites: insulin secretion, presynaptic dense core vesicle exocytosis, neurotransmitter secretion, and neuromuscular synaptic transmission all reflect vesicle fusion and release at the membrane. Additional terms (Golgi vesicle fusion, membrane docking, and protein targeting/localization) support a coordinated secretory pathway across neuroendocrine and synaptic contexts, indicating members of the secretory vesicle machinery and its trafficking to the plasma membrane.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030073","count":2},{"id":"GO:0045955","count":1},{"id":"GO:0099525","count":1},{"id":"GO:0048210","count":1},{"id":"GO:0007269","count":1}]},{"hash":"1730230158870153617","title":"Axon guidance and synapse development","description":"The top GO terms cluster around neural connectivity and formation: axonal fasciculation, corpus callosum development, positive regulation of synapse assembly and synaptic vesicle transport, along with Rho signaling and Wnt pathways implicated in neuronal growth and guidance. Minor terms about endothelial lumen extension and T cell activation appear incidental, but the dominant pattern supports axon guidance and synapse formation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0051965","count":2},{"id":"GO:1903744","count":2},{"id":"GO:0097498","count":2}]},{"hash":"996852084118033413","title":"Rho-dependent actin remodeling and cell migration","description":"GO terms cluster around Rho signaling, actin filament organization, and structures like filopodia, linking cytoskeletal dynamics to cell shape changes and movement; immune-related terms like innate immune response and dendritic cell chemotaxis suggest motility of immune cells powered by these actin processes. This combination supports a theme of actin remodeling driving morphology and locomotion.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0045666","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0051017","count":2}]},{"hash":"2036473876516996630","title":"Metabolic Regulation and Cell Cycle Signals","description":"This cluster centers on core metabolic processes such as hydrogen sulfide and cysteine biosynthesis, gluconeogenesis, and GTP biosynthesis, with signals of nutrient stress (glucose starvation) and magnesium transport, alongside cell-cycle regulation of mitotic progression and nuclear import. The mix suggests a metabolism-driven regulation of cell cycle and nuclear transport, rather than a single isolated pathway.","confidence":"Medium","size":19,"edges":93,"triangles":306,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070814","count":13},{"id":"GO:0030071","count":13},{"id":"GO:0045722","count":13},{"id":"GO:0006535","count":13},{"id":"GO:0006183","count":13}]},{"hash":"1184897272142018840","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0045292","count":2},{"id":"GO:0006406","count":2}]},{"hash":"83524527804294709","title":"Synaptic Vesicle Exocytosis and Potentiation","description":"Based on the top GO terms, the cluster centers on neuronal synaptic functions: neurotransmitter secretion, regulation of synaptic vesicle exocytosis, and long-term synaptic potentiation, with supportive membrane signaling (phosphatidylinositol-mediated signaling). Some terms like myoblast fusion or abscisic acid signaling appear peripheral, but the dominant theme is synaptic signaling and vesicle trafficking.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0007520","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0016540","count":3},{"id":"GO:0030948","count":3}]},{"hash":"753076529551588612","title":"RNA processing and ribosome biogenesis","description":"Enriched for post-transcriptional RNA processing (splicing regulation, mRNA stabilization) and ribosome biogenesis/assembly (small-subunit processome), pointing to a shared role in RNA metabolism and ribosome production. A few terms reflect unrelated processes (development, transcription regulation) but are less representative.","confidence":"High","size":19,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0006977","count":2},{"id":"GO:0003203","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1909970562374303186","title":"Rho/Rac/Ras GTPase signaling in immune cells","description":"Top terms indicate regulation and signaling of Rho family GTPases (Rho, Rac, Ras) and actin dynamics (filopodium assembly), with immune-context terms like B cell maturation and interleukin signaling. This points to small GTPase\u2013mediated signaling governing immune cell function and cytoskeletal remodeling. ","confidence":"Medium","size":19,"edges":9,"triangles":0,"max_degree":4,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0002344","count":10},{"id":"GO:0098761","count":10},{"id":"GO:0007264","count":10},{"id":"GO:0035020","count":10}]},{"hash":"1905370104847017464","title":"Mitochondrial Transcription and RNA Processing","description":"Top GO terms point to transcription and RNA processing, especially in mitochondria (mitochondrial transcription, mitochondrial promoter initiation, DNA-templated transcription, and polycistronic mRNA processing), with a secondary link to viral transcription. Some trafficking terms appear but do not align with the main signal. Thus, the cluster most likely comprises proteins involved in mitochondrial transcription and RNA processing.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031426","count":2},{"id":"GO:0006391","count":1},{"id":"GO:0039695","count":1},{"id":"GO:0006390","count":1},{"id":"GO:0060316","count":1}]},{"hash":"181768946291219163","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The top GO terms are dominated by ubiquitination and proteasomal degradation (SCF-dependent ubiquitin ligase activity, polyubiquitination, ubiquitin-dependent protein catabolic process), indicating a core role in targeted protein turnover. A few terms touch on cell-cycle regulation, histone modification, and development (oocyte maturation, neural tube initiation, microtubule dynamics), which can be linked to cell division and differentiation, but the unifying theme is proteostasis through the ubiquitin-proteasome system.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0000209","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0000083","count":6},{"id":"GO:0070544","count":6}]},{"hash":"937764276637001380","title":"Nuclear transcription and ribosome biogenesis","description":"The top GO terms cluster around transcription initiation by RNA polymerase II and preinitiation complex assembly, alongside ribosome biogenesis and rRNA maturation (5.8S rRNA). This suggests proteins in this cluster are involved in nuclear gene expression and ribosome assembly. A couple of lipid biosynthesis terms appear as singletons and may be annotation noise, not reflecting the main theme. Overall, these terms point to a coherent theme of nuclear transcription and ribosome production.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006656","count":1},{"id":"GO:0006686","count":1},{"id":"GO:1900370","count":1},{"id":"GO:1901092","count":1},{"id":"GO:0051123","count":1}]},{"hash":"1118326598249101226","title":"RNA processing and translation","description":"The cluster's top GO terms include mRNA cis splicing via spliceosome, polyadenylation, cytoplasmic translation, and related RNA processing steps, pointing to a shared involvement in gene expression at the RNA and protein synthesis level. While there are accompanying signals related to immune regulation and development, the strongest common theme across the terms is RNA maturation and translation, suggesting these proteins may participate in RNA processing and protein synthesis pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071364","count":2},{"id":"GO:0045085","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0002181","count":2}]},{"hash":"1756775379374091255","title":"Drosophila imaginal disc morphogenesis","description":"The top GO terms cluster around insect developmental morphogenesis, especially imaginal disc- and eye-related processes (imaginal disc-derived leg morphogenesis; morphogenetic furrow in eye), plus head involution and molting/cuticle remodeling. Some terms about immune or vascular regulation appear, but the dominant theme is insect tissue morphogenesis and development.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007480","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0002692","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0043314","count":2}]},{"hash":"1892050161772062679","title":"Neural proteostasis under heavy metal stress","description":"Predominant signals point to ubiquitin-dependent proteolysis and proteasomal degradation in neuronal cells, plus responses to cadmium, arsenic and methylmercury. This suggests the cluster centers on neural proteostasis and metal-stress adaptation; while circadian regulation and synapse-related terms appear, they likely reflect broader neuronal stress responses rather than defining the core function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":16},{"id":"GO:0071276","count":15},{"id":"GO:0000209","count":15},{"id":"GO:0030174","count":14},{"id":"GO:0060386","count":14}]},{"hash":"2038912150626118170","title":"Embryonic organ development","description":"This cluster\u2019s top GO terms span development and morphogenesis across numerous organs (gonads, forebrain, pancreas, pharyngeal system, uterus, inner ear, ureteric bud, skeletal muscle, digestive tract), indicating proteins involved in broad embryonic organogenesis rather than a single tissue-specific pathway.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":8},{"id":"GO:0021902","count":7},{"id":"GO:0003309","count":7},{"id":"GO:0060037","count":7},{"id":"GO:0060065","count":7}]},{"hash":"738683066516167188","title":"Calcium handling in muscle and synaptic signaling","description":"GO terms point to calcium ion transport/homeostasis, regulation of muscle contraction (skeletal and cardiac), and synaptic plasticity, along with supporting ion transport. This combination suggests a cohesive theme around calcium signaling coordinating muscle function and neuronal communication.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0097369","count":1},{"id":"GO:0006851","count":1},{"id":"GO:0060292","count":1},{"id":"GO:0007154","count":1}]},{"hash":"1608181510408160092","title":"Apoptosis and clathrin-mediated endocytosis","description":"The proteins here show strong signals for apoptotic processes (caspase activation and mitochondrial outer membrane permeabilization) and for clathrin-dependent endocytosis with clathrin coat assembly, including positive regulation of receptor-mediated endocytosis and EGFR/PDGFR signaling pathways. This suggests a cohesive theme where endocytic trafficking interfaces with apoptotic signaling, a plausible shared function for the cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0045742","count":2},{"id":"GO:2000588","count":2},{"id":"GO:0048260","count":2},{"id":"GO:0072583","count":2}]},{"hash":"1578080234608407218","title":"Ubiquitin-Proteasome Degradation and Metal Stress Response","description":"Most terms point to ubiquitin-dependent protein degradation (SCF pathway, polyubiquitination) \u2014 i.e., proteasomal turnover. The remaining terms indicate cellular responses to heavy metals (mercury, arsenic, cadmium) and regulation of circadian rhythm. The combined signal suggests a module of ubiquitin-proteasome\u2013driven proteolysis linked to metal stress response, with potential circadian regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":17},{"id":"GO:0042787","count":17},{"id":"GO:0042752","count":16},{"id":"GO:0000209","count":16},{"id":"GO:0071406","count":15}]},{"hash":"723737915219614770","title":"Rap and Rho GTPase Signaling","description":"The top GO terms are dominated by small GTPase\u2013mediated signaling, notably Rap protein signal transduction and regulation of Rho protein signal transduction, with a shared hint of cAMP-mediated signaling. This points to a module of GTPase-driven signal transduction. A few terms like chloroplast organization and light response may be annotation noise or represent secondary roles; however, the primary theme across the cluster appears to be signaling via Rap/Rho-type GTPases.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030073","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0034242","count":2}]},{"hash":"308252098573046876","title":"Ubiquitin-Proteasome Degradation","description":"This cluster is centered on ubiquitin-dependent protein catabolism, including ubiquitination and SCF-dependent proteasomal degradation, indicating a core role in ubiquitin-proteasome\u2013mediated protein turnover. Additional terms reflect stress and regulatory connections (metal ion responses, circadian regulation, synapse assembly) but do not override the dominant degradation theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0000209","count":13},{"id":"GO:0031146","count":12},{"id":"GO:1903378","count":12},{"id":"GO:0071276","count":12}]},{"hash":"2201586167854104402","title":"Cell signaling and cytoskeleton regulation","description":"Based on GO terms such as intracellular signal transduction, actin filament bundle assembly, Wnt signaling, SNARE complex regulation, pain perception, and cardiac SA node action potential regulation, this cluster converges on signaling networks that couple external and internal cues to cytoskeletal remodeling and vesicle trafficking. The terms are diverse, but collectively point to broader cell signaling and processes that influence cell shape, communication, and excitability.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0098907","count":2},{"id":"GO:2000340","count":2}]},{"hash":"1404018373270299938","title":"Rho/Ral GTPase\u2013driven cytoskeleton remodeling","description":"The cluster\u2019s top GO terms center on activation of small GTPases and regulation of Rho and Ral signaling, along with filopodium assembly and cell migration, pointing to coordinated cytoskeletal remodeling and motility. Some terms are obsolete or developmental (midbrain morphogenesis), but the dominant signal is GTPase-regulated cytoskeletal dynamics.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904693","count":4},{"id":"GO:0090630","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0032485","count":3},{"id":"GO:0007205","count":3}]},{"hash":"2104408358158864455","title":"Developmental cell migration and actin organization","description":"These proteins show strong representation of actin filament bundle assembly and cell migration, with related terms for heart development and axonogenesis. The dominant theme is cytoskeletal remodeling driving cell movement during development, supported by several developmental GO terms; a few telomere maintenance and apoptotic terms appear as potential secondary or ancillary associations. ","confidence":"High","size":18,"edges":32,"triangles":22,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0051017","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0016477","count":4}]},{"hash":"104668014836005273","title":"Epigenetic regulation and chromatin remodeling","description":"The top GO terms cluster around chromatin state and transcription control (negative regulation of transcription by RNA Pol II; histone methylation; chromatin remodeling), indicating a common function in epigenetic regulation of gene expression. A few terms point to broader cellular roles (spindle assembly, Rho signaling, development, membrane/chloroplast processes), but the dominant theme is chromatin-mediated transcription regulation.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0098532","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0007420","count":2}]},{"hash":"2175314647870668163","title":"DNA Repair and Genome Maintenance","description":"The proteins here are enriched for DNA recombination, base-excision repair, and DNA catabolic processes, indicating a core role in genome maintenance. Additional signals for xenobiotic and oxidative stress responses, plus hints of cell cycle regulation, suggest these proteins coordinate repair with cellular stress signaling.","confidence":"High","size":18,"edges":10,"triangles":2,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0042493","count":3},{"id":"GO:0006284","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0071375","count":2}]},{"hash":"1407328761138213570","title":"Proteolysis and ECM Remodeling","description":"The top GO terms point to broad proteolytic activity (protein deubiquitination, various catabolic processes) coupled with extracellular matrix remodeling (collagen catabolic process, basement membrane disassembly, bone resorption, intramembranous ossification). The mix of peptide catabolism (neuropeptides, bradykinin) and remodeling processes suggests a cluster centered on proteolysis guiding structural and signaling remodeling in tissues. Confidence: Medium","confidence":"Medium","size":18,"edges":138,"triangles":603,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0010813","count":5},{"id":"GO:0045453","count":5},{"id":"GO:0001957","count":5},{"id":"GO:0030574","count":5}]},{"hash":"854048381428814431","title":"RNA processing and translation initiation regulation","description":"This cluster is enriched for RNA processing and ribosome-related translation steps, including spliceosome-mediated mRNA splicing, small-subunit processome activity, translation preinitiation complex formation, and regulation of translational initiation along with IRES-dependent translation. Together these terms point to a unit coordinating RNA maturation with the initiation/reinitiation of translation, suggesting a combined role in RNA metabolism and ribosome biogenesis.","confidence":"High","size":18,"edges":123,"triangles":473,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0075525","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0001731","count":6}]},{"hash":"2191528187235012165","title":"RNA splicing and mRNA processing","description":"This cluster is dominated by terms related to RNA splicing and processing, including spliceosome-mediated mRNA splicing (GO:0045292), alternative splicing via spliceosome (GO:0000380), and regulation of splicing (GO:0048025). Additional terms point to post-transcriptional regulation of mRNA, such as mRNA stability in response to stress (GO:0010610) and regulation of poly(A) tail shortening (GO:0060211), as well as small-subunit processome assembly, which relates to RNA maturation. The presence of miRNA-mediated silencing by inhibition of translation (GO:0035278) further supports a post-transcriptional regulatory theme. Taken together, these signals indicate a cohesive RNA splicing and mRNA processing cluster.","confidence":"High","size":18,"edges":47,"triangles":0,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":4},{"id":"GO:0034462","count":3},{"id":"GO:0075525","count":3},{"id":"GO:1903586","count":3},{"id":"GO:0045292","count":3}]},{"hash":"242932968240952905","title":"Transcriptional regulation and cell growth signaling","description":"This cluster centers on transcriptional control (negative regulation of transcription by RNA Pol II and G1/S transition regulation), protein turnover via SCF-dependent ubiquitin-proteasome pathways, and growth-related signaling, with added emphasis on cytoskeletal dynamics (actin filament bundle assembly) and pathways like Wnt. The mix suggests a coherent theme around how transcription and signaling coordinate cell growth and remodeling, though a few terms (e.g., some lineage- or tissue-specific processes) are less directly connected. Confidence: Medium.","confidence":"","size":18,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0000083","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0051017","count":2}]},{"hash":"1651319113734891965","title":"Unknown","description":"Top terms span plant signaling (cytokinin pathway), photosynthesis, primary metabolism, and transcription, along with bacterial processes (flagellum-dependent motility, capsule and arabinan biosynthesis). The disparate themes and lack of edges imply no single unifying function for this set, so the appropriate label is Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0009736","count":4},{"id":"GO:0009820","count":4},{"id":"GO:0015979","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0010510","count":3}]},{"hash":"103173959287513060","title":"DNA Damage Response and Oxidative Stress","description":"The terms cluster around DNA repair and genome maintenance (base-excision repair, DNA recombination, DNA catabolic process) and oxidative stress responses (cellular response to hydrogen peroxide, cell redox homeostasis), with apoptosis and stress signaling ( xenobiotic and hormone-related responses) suggesting a cohesive theme of genome integrity maintenance under oxidative stress.","confidence":"High","size":18,"edges":7,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0006284","count":3},{"id":"GO:1900087","count":3}]},{"hash":"1993070515437228936","title":"Ubiquitin-Proteasome Regulation of Circadian and Metal Stress","description":"The cluster is dominated by ubiquitin-dependent proteolysis terms (polyubiquitination; SCF-dependent/proteasomal degradation) and circadian rhythm regulation, with strong signals for cellular responses to methylmercury, arsenic, and cadmium, suggesting a coherent module where protein turnover governs circadian and metal-stress signaling; additional cell-cycle\u2013related transcription and DNA replication initiation terms may reflect broader regulation by degradation pathways.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000209","count":13},{"id":"GO:0042752","count":12},{"id":"GO:0071406","count":12},{"id":"GO:0031146","count":12},{"id":"GO:0046685","count":12}]},{"hash":"561498111071974676","title":"Heart and skeletal muscle differentiation","description":"Several top terms clearly point to heart biology (regulation of SA node action potential, heart development, electrical coupling) alongside skeletal muscle differentiation and actin filament organization. This suggests proteins involved in muscle lineage specification and the formation of electrically connected muscle tissues, with actin-based structural roles. Some terms appear less related, but the dominant theme is cardiac and skeletal muscle development and organization.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0009409","count":4},{"id":"GO:0035914","count":4},{"id":"GO:0006469","count":3}]},{"hash":"1812222501880645931","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":13,"triangles":1,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006268","count":5},{"id":"GO:0050731","count":4},{"id":"GO:0000184","count":4},{"id":"GO:0009432","count":4}]},{"hash":"1042427949423992560","title":"Unknown","description":"The included GO terms are highly heterogeneous (redox/oxidation-reduction, actin filament depolymerization, detoxification, proliferation, adhesion, cellulose catabolism, antibiotic biosynthesis, pigmentation, SREBP signaling, and motor neuron specification), with no clear shared function or pathway. There are no edges to tie these proteins into a unitary biological role, so a single descriptive label cannot be robustly assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0030042","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0007155","count":2}]},{"hash":"734761931256017553","title":"Membrane trafficking and GTPase regulation","description":"Based on the top GO terms, the cluster centers on membrane dynamics and trafficking (plasma membrane repair, intracellular protein transport, Golgi inheritance) and on regulation of GTPase/Rho signaling (regulation of GTPase activity, regulation of Rho protein signal transduction). Some terms (ribosome biogenesis, sporulation, immune regulation) are less connected, but the strongest shared theme is membrane trafficking and cytoskeletal signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0048313","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0006886","count":2}]},{"hash":"2305275586423891428","title":"Unknown","description":"The top GO terms are diverse, including actin filament bundle assembly, lipid biosynthesis (glycolipid and phospholipid), menaquinone biosynthesis, various metabolic processes, and even regulatory signaling terms, with several obsolete annotations. There isn\u2019t a single coherent biological function that clearly ties all proteins together, suggesting a heterogeneous set or annotation noise. Therefore, no robust, representative label can be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0055114","count":3},{"id":"GO:2000324","count":3},{"id":"GO:0009247","count":2}]},{"hash":"1400590511111727992","title":"Chromatin Regulation and Biosynthetic Pathways","description":"The cluster features GO terms tied to chromatin regulation and epigenetic modification (rDNA heterochromatin formation, chromatin silencing at telomeres, protein methylation) alongside a variety of biosynthetic processes (antibiotic, cobalamin, lignin) and miscellaneous metabolic terms. This mix suggests proteins involved in epigenetic control as well as diverse biosynthetic activities, rather than a single cohesive function for the entire group. Confidence: Low","confidence":"","size":18,"edges":23,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0000183","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0042420","count":2},{"id":"GO:0042135","count":2}]},{"hash":"852873400688593614","title":"Ciliary development and pancreatic differentiation","description":"This cluster\u2019s top GO terms center on cilium assembly and cilium-dependent cell motility, along with endocrine pancreas development, type B pancreatic cell differentiation/maturation, and cerebellar cortex morphogenesis, suggesting a shared theme of developmental programs tied to ciliary function and pancreatic lineage. While DNA repair and chromatin-related terms appear, they likely reflect broader cellular maintenance rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0021696","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0060285","count":2}]},{"hash":"1209860659202708551","title":"Translational Machinery and mRNA Regulation","description":"The top GO terms are centered on translation processes (initiation, elongation, termination, and cytoplasmic translation) and a specific aspect of translation (selenocysteine incorporation), along with deadenylation-dependent mRNA decay, indicating a cohesive module focused on the core translation apparatus and post-transcriptional regulation. A few other terms (glial proliferation, cell division, antibiotic response) may reflect broader cellular or stress contexts but do not redefine the main theme. ","confidence":"High","size":18,"edges":23,"triangles":23,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":6},{"id":"GO:0014009","count":4},{"id":"GO:0000288","count":4},{"id":"GO:2000767","count":4}]},{"hash":"563974523896974626","title":"Ribosome Biogenesis and Cell Cycle","description":"Dominant signals are ribosome biogenesis and ribosomal subunit export, with cell cycle and division terms, pointing to proteins involved in ribosome assembly/export linked to cell-cycle progression; ubiquitin-dependent protein catabolism suggests turnover during assembly, while cadmium response and amino acid starvation terms reflect stress-linked regulation.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0042274","count":2},{"id":"GO:1903833","count":2}]},{"hash":"2150413368378782892","title":"Rho/Rac GTPase-driven endothelial actin remodeling","description":"The top GO terms cluster around Rho and Rac GTPase signaling, regulation of actin cytoskeleton, and lamellipodium assembly, with links to endothelial barrier establishment and cell spreading. This suggests a cohesive module of cytoskeletal remodeling controlled by Rho family GTPases in endothelial cells, hence the chosen name.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0090557","count":3},{"id":"GO:0007264","count":3}]},{"hash":"2104281102086020096","title":"Chromatin Dynamics and ECM Remodeling","description":"The top terms point to nuclear processes (chromatin organization, mitotic cell cycle) and extracellular matrix remodeling (collagen catabolic process, cell morphogenesis). Some terms related to lipopolysaccharide and slime layer biosynthesis suggest potential bacterial capsule/biofilm functions, which may reflect annotation noise or cross-species context. Overall, the cluster seems to bridge chromatin/cell-cycle dynamics with extracellular remodeling.","confidence":"Medium","size":18,"edges":125,"triangles":535,"max_degree":16,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030574","count":3},{"id":"GO:0035551","count":3},{"id":"GO:0034724","count":3},{"id":"GO:0034396","count":3},{"id":"GO:0000902","count":3}]},{"hash":"524086407347407453","title":"Axon Guidance and Neural Morphogenesis","description":"This cluster is dominated by GO terms for CNS axonogenesis, optic nerve morphogenesis, retinal ganglion cell axon guidance, corpus callosum development, and ephrin receptor signaling, pointing to neural development and axon pathfinding; dendritic spine morphogenesis also supports neuronal morphogenesis. A few immune terms appear as noise, but the strongest signal is neural development and axon guidance.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050798","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0022038","count":3},{"id":"GO:0071372","count":3}]},{"hash":"2249280699998723344","title":"Ribosome biogenesis and mitosis","description":"This cluster is characterized by ribosome biogenesis and translation terms (GO:0042254, GO:0006412, GO:0000055) along with cell cycle/mitosis terms (GO:0007049, GO:0007064, GO:0034087), indicating a group of proteins involved in ribosome assembly and export that is coordinated with cell division processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1653295218481972346","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome-related processes (translation, ribosome biogenesis, and ribosomal subunit export from the nucleus), indicating this cluster centers on ribosome production and protein synthesis machinery. Additional terms about cell division and cell cycle are supportive of a growth-related context but do not outweigh the ribosome-focused theme.","confidence":"High","size":18,"edges":29,"triangles":21,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0042274","count":3},{"id":"GO:1903833","count":3}]},{"hash":"918081944703863940","title":"Ribosome Biogenesis and Translational Regulation","description":"This cluster is driven by terms tied to protein synthesis, notably ribosome biogenesis and regulation of translational fidelity (and related tRNA modification), pointing to translation machinery as the core theme. The other terms (actin assembly, Wnt signaling, immune processes, electrical coupling regulation) are diverse and likely represent peripheral or pleiotropic annotations, but they do not outweigh the translation-centric signals. Therefore, the label focuses on ribosome-related processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0046944","count":1},{"id":"GO:0002949","count":1},{"id":"GO:0010650","count":1}]},{"hash":"1802731332703198977","title":"Nucleotide salvage and sugar catabolism","description":"This cluster includes GO terms for nucleotide salvage (AMP salvage, adenosine salvage) and dATP biosynthesis, alongside several carbohydrate-related processes (glycolysis through fructose-6-phosphate, carbohydrate phosphorylation, lactose catabolic via tagatose-6-phosphate, sulfoquinovose catabolism, and inositol phosphate biosynthesis). The common thread appears to be metabolic functions tied to nucleotide turnover and diverse sugar metabolism, suggesting a broad metabolic cluster rather than a single pathway. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0046835","count":1},{"id":"GO:0009750","count":1},{"id":"GO:0044209","count":1},{"id":"GO:0006175","count":1}]},{"hash":"1476443649988884205","title":"Rac-driven lamellipodium formation and TGF-beta/BMP signaling","description":"The top GO terms reveal a core of cytoskeletal remodeling driven by Rac (lamellipodium assembly, Rac signaling) alongside growth factor signaling pathways (TGF-beta response, BMP/SMAD-related regulation). A few terms related to germ-line masculinization or plant meristem identity are present but infrequent and do not override the dominant themes. Thus the cluster most likely represents proteins involved in cytoskeletal dynamics coupled with TGF-beta/BMP signaling modulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":2},{"id":"GO:0016601","count":2},{"id":"GO:0042006","count":1},{"id":"GO:0035970","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1520383144695875360","title":"Nuclear RNA Processing and Transcription","description":"The cluster shows strong signals for DNA-templated transcription and mRNA splicing via spliceosome, pointing to nuclear RNA processing and regulation of gene expression as the core theme; other terms are heterogeneous, but the RNA-processing signals dominate.","confidence":"Medium","size":17,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010039","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0015967","count":1},{"id":"GO:0019499","count":1}]},{"hash":"1773984873703483908","title":"Cytoskeletal Dynamics and Cell Adhesion in Morphogenesis","description":"The cluster centers on actin cytoskeleton remodeling (filopodium assembly, cytoskeleton reorganization), regulation of focal adhesions and cell spreading, and processes involved in neuronal morphology (dendrite/axon morphogenesis) as well as signaling tied to T cell receptors, suggesting a cohesive theme of cytoskeletal dynamics governing cell adhesion and shape during morphogenesis across cell types. Some terms (e.g., mitotic cell cycle) appear tangential, likely representing shared machinery rather than core function; overall the link to cytoskeletal remodeling and adhesion best explains the group.","confidence":"Medium","size":17,"edges":24,"triangles":11,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000186","count":4},{"id":"GO:0048813","count":4},{"id":"GO:0051893","count":4},{"id":"GO:1900026","count":4}]},{"hash":"924253943829744547","title":"Developmental growth and differentiation in muscle and neurons","description":"The cluster is dominated by terms tied to development and differentiation, including myoblast fusion (muscle formation), neuron axonogenesis, and regulation of developmental growth, along with related growth factor signaling and cell-matrix adhesion. This points to a cohort of proteins coordinating tissue development and differentiation in muscle and neural contexts, despite some broader terms like mitotic cell cycle and occasional obsolete entries.","confidence":"Medium","size":17,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":12},{"id":"GO:0001954","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0048638","count":11},{"id":"GO:0007520","count":11}]},{"hash":"1868894210619443182","title":"Membrane Transport of Ions and Small Molecules","description":"The top GO terms cluster around diverse membrane transport activities: chloride and monoatomic anion transport, glycine betaine uptake, xenobiotic transport, teichoic acid transport, and peroxisomal fatty acid import, as well as mitochondrial peptide export and endocytic recycling linked to membrane trafficking. Together, they point to a coherent theme of transporting ions and small molecules across membranes and related trafficking processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046689","count":4},{"id":"GO:1902476","count":4},{"id":"GO:0031460","count":4},{"id":"GO:2001137","count":3},{"id":"GO:0060081","count":3}]},{"hash":"1849104181300676225","title":"Neuronal Development and Cytoskeletal Dynamics","description":"This cluster is dominated by terms related to nervous system development, including dendrite morphogenesis, hippocampus development, and regulation of axonogenesis, along with cytoskeletal control such as focal adhesion assembly and actin cytoskeleton remodeling. The presence of mitotic cell cycle and JNK signaling terms suggests broader signaling roles, but the strong emphasis on neural development and cytoskeletal regulation indicates a cohesive theme of neuronal growth and morphology. ","confidence":"High","size":17,"edges":73,"triangles":114,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":17},{"id":"GO:0048813","count":17},{"id":"GO:0051893","count":17},{"id":"GO:0050771","count":17},{"id":"GO:0031647","count":17}]},{"hash":"1818495174595724567","title":"Neuronal morphogenesis and signaling","description":"The cluster's top terms center on neuron-related processes: dendrite morphogenesis, fasciculation of motor neuron axons, and osmosensory signaling, with potassium ion transport supporting neuronal excitability. While some terms reflect broader cellular maintenance or transcriptional regulation, the strongest and most coherent theme is neural development and signaling. Thus, the label captures the predominant function represented by the proteins in this cluster.","confidence":"Medium","size":17,"edges":25,"triangles":20,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048813","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0043552","count":12},{"id":"GO:0006813","count":12},{"id":"GO:0045793","count":11}]},{"hash":"2128338503541297174","title":"Stem Cell Maintenance and Chromatin Remodeling","description":"Reasoning: The top terms point to chromatin remodeling, DNA methylation, and regulation of stem cell populations (somatic stem cell maintenance, megakaryocyte differentiation), which together suggest a theme centered on how chromatin dynamics influence stem cell maintenance and differentiation. Some trafficking-related terms are present but appear ancillary to this core theme. Confidence: Medium","confidence":"","size":17,"edges":13,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0045654","count":2},{"id":"GO:0035019","count":2},{"id":"GO:0032425","count":2}]},{"hash":"2066077213326918637","title":"DNA replication and cell cycle regulation","description":"Based on the top GO terms, the cluster is enriched for DNA replication (GO:0006260), meiotic DNA double-strand break formation (GO:0010780), and regulation of chromosome condensation (GO:1905213), all hallmark processes of genome maintenance and cell-cycle control. A parallel theme of ER-to-Golgi vesicle transport (GO:0006888) and differentiation-related terms appears but seems secondary to the core cell-cycle/genome maintenance signal. Overall, the dominant theme is DNA replication and cell cycle regulation rather than a single specialized function.","confidence":"Medium","size":17,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006888","count":4},{"id":"GO:1903501","count":3},{"id":"GO:1905213","count":3},{"id":"GO:0060487","count":3}]},{"hash":"755962402014309811","title":"DNA replication and repair, cell cycle cluster","description":"The dominant terms are DNA replication, DNA repair, mitotic cell cycle, and DNA-templated transcription, with related signals for meiosis and stress responses (ionizing radiation, nitric oxide, cadmium), pointing to a nucleus-centric DNA maintenance and cell-cycle\u2013related function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0071479","count":8},{"id":"GO:0000706","count":8},{"id":"GO:0048701","count":8},{"id":"GO:0000278","count":8}]},{"hash":"474175837467830311","title":"Diverse metabolism and biosynthesis","description":"The listed GO terms cover proteolysis, detoxification, nucleotide and amino acid metabolism, lipid catabolism, cofactor biosynthesis, tRNA modification, and even regulatory signaling, with no single pathway dominating. This broad mix suggests the proteins participate in multiple metabolic and biosynthetic activities rather than a single coherent function, so a label that captures overall metabolic diversity and biosynthesis fits best.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0006541","count":2},{"id":"GO:0006177","count":2},{"id":"GO:0017000","count":2}]},{"hash":"114728925747202357","title":"Mitochondrial metabolism and translation","description":"The dominant signals are central energy metabolism and mitochondrial translation (glycolytic and TCA-cycle related processes, plus mitochondrial protein synthesis), with supporting clues from amino acid biosynthesis and iron-responsive pathways, suggesting a mitochondria-centric metabolic and translational theme rather than a single signaling pathway.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0006693","count":2},{"id":"GO:0009097","count":2},{"id":"GO:0006099","count":2}]},{"hash":"1001400294406915790","title":"Autophagy and protein quality control","description":"Based on the GO terms, the cluster shows strong signals for selective autophagy (mitophagy, aggrephagy) and related vesicle formation processes, plus ER-associated quality control activities like deglycosylation and ERAD-related pathways. Although there are a few terms related to transcription or DNA repair, the dominant theme is autophagy-driven turnover of damaged organelles and protein aggregates, signaling a stress-response quality-control module.","confidence":"High","size":17,"edges":12,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1901340","count":2},{"id":"GO:0000423","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0097237","count":2}]},{"hash":"1825752344108621028","title":"Lipid and Fatty Acid Biosynthesis","description":"The cluster is dominated by lipid-related biosynthetic terms: very long-chain fatty acid biosynthesis, 3-keto-sphinganine metabolic process, retinol and retinal metabolism, and poly-hydroxybutyrate biosynthetic process, all pointing to lipid and related metabolite production. There are a few outliers (antibiotic biosynthesis, response to antibiotic, lung development) that may reflect annotation noise or cross-species annotations, but they do not override the prevailing lipid/metabolism pattern. Overall this cluster seems best described as lipid and fatty acid biosynthesis and related metabolite pathways.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0030324","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0055114","count":5}]},{"hash":"2158188680217483061","title":"Amino acid metabolism","description":"This cluster is dominated by terms related to amino acid biosynthesis and catabolism (lysine via aminoadipic acid, L-alanine, L-kynurenine, L-phenylalanine, L-threonine) and the central carbon metabolism link to the TCA cycle, suggesting a shared role in amino acid turnover and energy metabolism. A few outliers (Notch signaling, lipopolysaccharide biosynthesis) may reflect annotation noise or broad functions, but metabolism seems the core theme. ","confidence":"Medium","size":17,"edges":117,"triangles":447,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0007219","count":4},{"id":"GO:0033512","count":4}]},{"hash":"561899880783055819","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010833","count":2},{"id":"GO:0070200","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0000398","count":2}]},{"hash":"81933261000145525","title":"Cytoskeleton Remodeling and Mechanotransduction","description":"Proteins in this cluster are enriched for actin cytoskeleton dynamics (actin filament branching; podosome assembly), cell\u2013cell adhesion (adherens junction organization), and mechanotransduction (cellular response to mechanical stimulus; regulation of Rho signaling; ERK cascade modulation). The combination suggests a module coordinating cytoskeletal remodeling with adhesion and signaling in response to mechanical cues. A few terms such as nitrate assimilation and multicellular growth are less central but may reflect broader metabolic or developmental roles among cluster members.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0042128","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0034332","count":2},{"id":"GO:0071803","count":2}]},{"hash":"220731670764673849","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0030036","count":2}]},{"hash":"956578260967719008","title":"Protein and RNA Methyltransferases","description":"This cluster is dominated by methylation-related GO terms: arginine, lysine, glutamine, and glycine methylation on proteins, rRNA methylation, histone methylation, and related methyltransferase activities. Together, these suggest a functional grouping of methyltransferases acting on proteins and RNAs (including chromatin-associated enzymes), with occasional broader terms like cellular senescence and pituitary development reflecting annotation breadth.","confidence":"High","size":17,"edges":13,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090398","count":4},{"id":"GO:0021983","count":4},{"id":"GO:0046690","count":3},{"id":"GO:0019919","count":3},{"id":"GO:0018027","count":3}]},{"hash":"2288859601005457225","title":"Tissue morphogenesis and signaling","description":"The Top Terms point to morphogenesis across multiple tissues (anterior midgut invagination, imaginal disc\u2013derived leg morphogenesis, pericardium morphogenesis, midbrain morphogenesis) and to regulatory signaling processes (Rho signaling, growth hormone secretion, PI3K activity, vascular permeability). This suggests a theme of developmental tissue shaping and its control mechanisms, rather than a single specific pathway, so a label like tissue morphogenesis and signaling is most representative. Some terms are obsolete, but the core theme remains morphogenesis-related.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0007375","count":2},{"id":"GO:0036309","count":2},{"id":"GO:0007480","count":2},{"id":"GO:0060124","count":2}]},{"hash":"1571141683897150940","title":"Actin Cytoskeleton Remodeling in Neuronal Development","description":"The cluster shows a strong theme of actin-driven changes, with terms for filopodium and stress fiber assembly, Rac signaling, and adhesion-dependent cell spreading, indicating cytoskeleton remodeling and cell motility. The nervous system development terms further tie these cytoskeletal processes to neural morphology and signaling, including synaptic vesicle regulation. While some mitotic terms appear, the dominant pattern centers on actin dynamics linked to neuronal development.","confidence":"Medium","size":17,"edges":20,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0051496","count":2},{"id":"GO:1900242","count":2}]},{"hash":"217892285121707988","title":"Endothelial signaling and cytoskeletal regulation","description":"This cluster centers on signaling pathways (ephrin receptor, GPCR) and cytoskeletal regulators (Rho/Rac, stress fibers) that influence endothelial tube formation and morphogenesis, with supplementary terms reflecting broader cellular signaling functions such as synapse assembly and T cell proliferation. The common theme is signaling-driven control of cytoskeletal dynamics and endothelial morphogenesis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0097498","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0035023","count":3}]},{"hash":"309562649665000605","title":"Translation initiation machinery and RNA processing","description":"The Top Terms are dominated by translation-related processes: formation of the translation preinitiation complex, regulation of translational initiation, translation reinitiation, IRES-dependent viral translation initiation/termination, and mRNA export. While there are a few outlier terms (insulin stimulus, axis specification, UV repair), the core signals point to RNA translation and processing as the cluster\u2019s unifying theme.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0008069","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0032869","count":3}]},{"hash":"227440370592117188","title":"DNA Replication and Repair Proteins","description":"This cluster is dominated by GO terms related to nucleic acid maintenance and genome integrity, including mitochondrial and plastid DNA replication, base-excision repair, and double-strand break repair (alternative NHEJ), indicating a coherent module of DNA replication/repair functions. Some terms refer to stress responses or viral replication, but the core signal points to DNA maintenance machinery. ","confidence":"Medium","size":17,"edges":15,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0055093","count":1},{"id":"GO:0033259","count":1},{"id":"GO:0010332","count":1},{"id":"GO:0006287","count":1}]},{"hash":"1192716145268322490","title":"Multi-tissue Development and Differentiation","description":"The terms point to development and differentiation across diverse tissues (reproductive, endocrine, cardiac, neural, immune) and include regulatory steps for TGF-beta signaling and a neurotransmitter biosynthesis process. Together they imply a cluster of genes associated with general developmental programs and cell fate specification across tissues rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":5},{"id":"GO:0060017","count":4},{"id":"GO:0061026","count":4},{"id":"GO:0032911","count":4},{"id":"GO:0045650","count":4}]},{"hash":"1963558979061904089","title":"Ubiquitin-dependent proteolysis and NF-kB signaling","description":"The top GO terms are dominated by ubiquitin-related catabolic processes (ubiquitin-dependent proteolysis, autoubiquitination, K48-linked ubiquitination), pointing to protein degradation via the ubiquitin-proteasome system. There is also a signal related to NF-kB pathway regulation (I-kappaB phosphorylation and NF-kappaB activity), which is tightly controlled by ubiquitination. Some other terms are less connected (stress response, morphogenesis, lipid catabolism), but they do not outweigh the central ubiquitin-proteasome theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070936","count":2},{"id":"GO:1903721","count":2},{"id":"GO:0051092","count":2}]},{"hash":"570031478456238425","title":"Regulators of cell cycle, differentiation, and protein turnover","description":"The top GO terms indicate regulatory roles across multiple cellular processes, including regulation of protein catabolic processes and desumoylation, protein complex assembly, cell division and meiotic chromosome separation, meiotic cell cycle regulation, forebrain radial glial cell differentiation, and ciliogenesis docking. This pattern suggests proteins that function as regulators of broader cellular processes\u2014covering cell cycle progression, developmental differentiation, and protein homeostasis\u2014rather than a single, cohesive pathway.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0021861","count":2},{"id":"GO:0097711","count":2}]},{"hash":"958190590453835052","title":"Rac-GTPase Signaling and Actin Remodeling","description":"The top terms cluster around Rac signaling, GTPase activation, and TORC2 signaling, together with actin filament bundle assembly and membrane tubulation regulation. This points to a module where small GTPase activity drives actin cytoskeleton remodeling and membrane dynamics, underpinning cell motility and locomotion phenotypes (as hinted by adult locomotory behavior). ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071225","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0051017","count":2},{"id":"GO:1903527","count":2},{"id":"GO:0002692","count":2}]},{"hash":"1818612228886744654","title":"Rho/Rac GTPase Signaling Regulation","description":"The cluster\u2019s top GO terms are centered on regulation of Rho family GTPases, including Rho and Rac, and general small GTPase\u2013mediated signaling, with several terms pointing to positive regulation of GTPase activity. While there are additional terms related to IGF signaling, apoptosis, hematopoiesis, and blood vessel formation, the unifying theme is control of Rho/Rac GTPase\u2013driven signaling that governs cytoskeletal dynamics and related pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0048009","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0045671","count":3}]},{"hash":"224172014734472970","title":"DNA replication and transcription regulators","description":"Mostly DNA-related functions: DNA replication, DNA-templated transcription, and centrosome cycle. This points to nuclear processes driving genome duplication and transcription. The presence of signaling-related GO terms (NF-kappaB activation, JNK regulation, insulin signaling, prostaglandin response) suggests the proteins may be multifunctional or involved in coordinating cell cycle with signaling cues. Overall, the cluster centers on nuclear replication/transcription with regulatory signaling roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0010571","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0046329","count":2}]},{"hash":"916384617890669978","title":"DNA Damage Response and Repair","description":"This cluster centers on genome maintenance and stress signaling: DNA replication, base-excision repair, recombination, and DNA catabolic processes point to DNA damage sensing and repair; apoptotic process suggests outcomes of damage, while redox homeostasis and xenobiotic response indicate broader stress signaling. The presence of cell cycle-related regulation (G1/S transition) reinforces a coordinated DDR and cell fate decision.","confidence":"High","size":17,"edges":19,"triangles":2,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006284","count":3}]},{"hash":"1753764136356510155","title":"Developmental and mitotic regulators","description":"The top GO terms cluster around developmental processes like mesoderm development and lung epithelial differentiation, alongside cell division machinery such as kinetochore localization, mitotic actomyosin ring regulation, and meiotic DSB formation. This suggests proteins that participate in both development signaling and chromosome dynamics, with additional regulatory roles in miRNA processing and calcium signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007498","count":4},{"id":"GO:0034501","count":4},{"id":"GO:1903501","count":3},{"id":"GO:1905213","count":3},{"id":"GO:0060487","count":3}]},{"hash":"1173156255931233478","title":"Unknown","description":"The top terms span very diverse processes (oocyte maturation, circadian rhythm, microtubule polymerization, responses to several heavy metals, and ubiquitin-proteasome\u2013related degradation) with even obsolete annotations, and there are no interactions among proteins in this cluster. This suggests no coherent, shared function to bind the proteins, so a generic Unknown label is most appropriate.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070544","count":1},{"id":"GO:0001556","count":1},{"id":"GO:0046785","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0071406","count":1}]},{"hash":"2238872188302197454","title":"Tissue morphogenesis and cell migration","description":"The cluster co-occurs with GO terms spanning nervous system development, hair follicle and gland morphogenesis, and lung epithelial proliferation, together with cytoskeleton- and motility-related processes (lamellipodium/podosome assembly, actin reorganization, hemocyte migration), suggesting a cohesive theme of morphogenesis driven by cell movement and actin dynamics.","confidence":"Medium","size":16,"edges":15,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0010592","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0035099","count":5}]},{"hash":"320285425852089557","title":"RNAP II Transcription and DNA Replication","description":"The top terms are dominated by RNA polymerase II\u2013related processes (promoter clearance and transcription elongation) and include a DNA replication term, suggesting a cluster of nuclear gene expression machinery with a link to genome replication. Some actin-related terms appear, possibly reflecting chromatin/transcription-associated roles or noise, but the core theme centers on RNAP II\u2013driven transcription and genome maintenance.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0032233","count":2},{"id":"GO:0045010","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0010801","count":2}]},{"hash":"1250461774603052854","title":"ECM remodeling during development","description":"The cluster prominently features GO terms for collagen and basement membrane catabolism, bone resorption, and intramembranous ossification, all pointing to extracellular matrix remodeling. Additional terms about lung morphogenesis and decidualization, plus proteolysis of neuropeptides and bradykinin, support a broader theme of proteolytic remodeling during development and tissue morphogenesis. Taken together, these terms suggest a cohesive function in ECM-driven remodeling processes that facilitate developmental morphogenesis.","confidence":"High","size":16,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":4},{"id":"GO:0010813","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0030574","count":3},{"id":"GO:0046697","count":3}]},{"hash":"1022035343661435403","title":"Unknown","description":"The GO terms span a wide range of processes (cell size regulation, nuclear import, drug response, transcription, chemotaxis, placenta development, metabolism, sperm capacitation, mitosis, visual perception), with no clear single function or pathway uniting them. This suggests the proteins belong to multiple distinct processes rather than a cohesive module.","confidence":"","size":16,"edges":29,"triangles":24,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045793","count":7},{"id":"GO:0033160","count":7},{"id":"GO:0042220","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0006935","count":7}]},{"hash":"126702117574863572","title":"Angiogenesis and axon-guided cell migration signaling","description":"The terms cluster around vascular sprouting and VEGF/PDGF-PI3K-AKT signaling, with positive regulation of cell migration, as well as neuronal aspects such as retinal ganglion cell axon guidance and synapse assembly, suggesting a unified program of adhesion-driven migration that connects angiogenesis with neural pathfinding.","confidence":"High","size":16,"edges":20,"triangles":7,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0034446","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0002042","count":6},{"id":"GO:0010763","count":5},{"id":"GO:2000811","count":5}]},{"hash":"1761841004937466281","title":"Membrane Transport and Stress Response","description":"The proteins show multiple transport-related GO terms, including transmembrane transport of monoatomic anions, cGMP transport, cholesterol efflux, long-chain fatty acid import into peroxisomes, and teichoic acid transport, suggesting membrane transport roles. They also include several stress-related terms (response to xenobiotic stimulus, mercury ion, ionizing radiation, and hypoxia), indicating associated or incidental stress-response functions rather than a single cohesive pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035103","count":1},{"id":"GO:1900039","count":1},{"id":"GO:0099133","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0015777","count":1}]},{"hash":"1596458786158483203","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":8,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0090394","count":6},{"id":"GO:0071035","count":4},{"id":"GO:1902775","count":4}]},{"hash":"781129116588847259","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0061087","count":3}]},{"hash":"1865051859463768130","title":"Mitochondrial Transport and Bioenergetics","description":"This cluster centers on mitochondrial metabolite transport (ADP, alpha-ketoglutarate, NAD) and regulation of the mitochondrial membrane potential, along with magnesium export from the mitochondrion. The GO terms point to a cohesive mitochondrial energy metabolism role, with ancillary links to IGF and insulin signaling that modulate metabolic state.","confidence":"High","size":16,"edges":22,"triangles":12,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":6},{"id":"GO:0015866","count":5},{"id":"GO:0097421","count":5},{"id":"GO:0051881","count":5},{"id":"GO:0015742","count":5}]},{"hash":"777221438958999737","title":"Cytoskeleton dynamics and vesicle trafficking","description":"The top GO terms cluster around actin-based structures (filopodium/microspike assembly) and Rho signaling, with concurrent involvement in Golgi retention and endosomal transport, suggesting a theme of coordinating cytoskeleton remodeling with membrane trafficking; other terms like ion transport or apoptotic changes appear peripheral.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0016197","count":2},{"id":"GO:0030035","count":2}]},{"hash":"1836063810112638058","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms cluster around ribosomal subunit biogenesis and rRNA maturation (5.8S, SSU/LSU rRNA maturation) and translation initiation (formation of translation preinitiation complex, translation reinitiation), indicating the proteins primarily participate in ribosome assembly and initiation of translation. Ubiquitination/proteasomal turnover and cadmium response terms appear as secondary associations rather than core functions. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0000398","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0071276","count":5}]},{"hash":"1748600450807882771","title":"Protein Transport and Translation Machinery","description":"This cluster centers on intracellular protein handling, including nuclear import, ER-to-cytosol retrograde transport, membrane targeting, and misfolded protein transport, along with core gene expression processes like translation and mRNA transport. These themes together suggest a cohesive role in protein trafficking and synthesis, with broader physiological terms reflecting downstream functional contexts.","confidence":"Medium","size":16,"edges":63,"triangles":105,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0060291","count":2}]},{"hash":"1181366461905176738","title":"LPS Biosynthesis and Antibiotic Processes","description":"The top GO terms point strongly to lipopolysaccharide biosynthesis, including lipopolysaccharide core region biosynthesis and ADP-L-glycero-beta-D-manno-heptose biosynthesis, as well as antibiotic-related processes (antibiotic biosynthetic process and response to antibiotic). This suggests a cluster of bacterial proteins involved in LPS assembly and antibiotic-related functions. Some transcription-related terms imply regulatory components that may coordinate these pathways, with other terms (oxidant detoxification, L-glutamine metabolism) providing broader cellular context. Note that one highly ranked term is an obsolete oxidation-reduction process, which may reflect annotation quirks rather than a core feature of this cluster.","confidence":"Medium","size":16,"edges":9,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006351","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0017000","count":3}]},{"hash":"2291190314048359392","title":"Ribosome Biogenesis and Cell Cycle Regulation","description":"This cluster is dominated by GO terms tied to ribosome assembly and function (ribosomal large subunit export from nucleus, ribosomal small subunit biogenesis, cytoplasmic translation) and to cell cycle processes (cell division, cell cycle, cell septum assembly), suggesting a cohesive role in ribosome biogenesis together with cell-cycle control. Minor associations to DNA repair and stress responses exist but are less central to the core theme.","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0090529","count":2}]},{"hash":"1694775273247855723","title":"Excitatory Synapse Assembly and Transmission","description":"The dominant GO terms cluster around excitatory synapse formation and function: presynaptic membrane assembly, regulation of terminal button organization, synaptic vesicle endocytosis, and excitatory synapse assembly; along with regulation of protein localization to the synapse and trans-synaptic signaling, all consistent with components of excitatory neurotransmission. Peripheral terms like response to xenobiotic stimulus and folic acid are less central. Thus this cluster likely represents proteins involved in assembling and regulating excitatory synapses and neurotransmission.","confidence":"High","size":16,"edges":108,"triangles":425,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":6},{"id":"GO:0032223","count":5},{"id":"GO:2000463","count":5},{"id":"GO:0098942","count":5},{"id":"GO:2000331","count":5}]},{"hash":"2237644716955685928","title":"Neuroimmune Signaling and Axonogenesis","description":"This cluster shows strong signals for innate immune responses (innate immunity, interferon-beta production, LPS response, dsRNA response) alongside neural development processes (axonogenesis, corpus callosum development). While these are distinct, they can reflect neuroimmune interactions where immune signaling intersects with neural development or function. Therefore, a label emphasizing both aspects best represents the cluster, with moderate confidence given partial thematic cohesion.","confidence":"Medium","size":16,"edges":42,"triangles":36,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":11},{"id":"GO:0045087","count":9},{"id":"GO:0045359","count":9},{"id":"GO:0050830","count":9},{"id":"GO:0014068","count":9}]},{"hash":"1761702072829725125","title":"Spinal motor neuron development and neurite organization","description":"These proteins cluster around spinal cord neuron development: terms reference ventral spinal cord interneuron specification, spinal cord motor neuron cell fate specification, and medial motor column neuron differentiation, pointing to motor neuron development in the spinal cord. Supporting processes such as actin filament bundle assembly and exocytosis suggest cellular remodeling and synaptic activity involved in neurite outgrowth. Other terms (female gonad development, glucocorticoid signaling, and general cell junction organization) are less central but may reflect broader regulatory roles in development.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0021521","count":3},{"id":"GO:0045216","count":3},{"id":"GO:0051017","count":3},{"id":"GO:2000324","count":3}]},{"hash":"1778140404985099618","title":"Deubiquitinases Modulating Inflammatory Signaling","description":"The top GO terms cluster around multiple lysine-linked deubiquitination activities (K11, K48, K33, K6) and negative regulation of key inflammatory pathways (NF-kappaB signaling, TLR5, NOD2), suggesting these proteins act to dampen immune signaling via deubiquitination; a minor splicing regulation term appears but is not dominant. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007175","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0002677","count":2},{"id":"GO:0035871","count":2},{"id":"GO:0070433","count":2}]},{"hash":"143756088965409579","title":"Ribosome Biogenesis and Translation Initiation","description":"The cluster centers on formation and regulation of translation initiation complexes (preinitiation and cytoplasmic initiation), plus ribosome biogenesis and rRNA maturation. The presence of IRES-dependent viral translation terms and viral translational termination-reinitiation suggests involvement in translation initiation processes, including contexts exploited by viruses, but all tie back to ribosome assembly and initiation. Overall, these terms point to a cohesive theme of ribosome production and the initiation of protein synthesis.","confidence":"High","size":16,"edges":112,"triangles":459,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0075525","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0006446","count":3}]},{"hash":"9897340899317451","title":"Nucleolar ribosome biogenesis and cell-cycle proteins","description":"This cluster is enriched for ribosome biogenesis and rRNA maturation, with supporting terms for cell division, transcription, and chromatin assembly, indicating a nucleolar, ribosome-related module that links ribosome production to cell-cycle processes and genome maintenance.","confidence":"High","size":16,"edges":50,"triangles":62,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0009432","count":4}]},{"hash":"598933554981448622","title":"Unknown","description":"The GO terms show disparate processes\u2014fungal sporulation, kidney development, various secretory activities, and multiple transport and cytoskeletal-related functions\u2014offering no single coherent function to bind the cluster. As a result, there isn\u2019t a confident, representative label to assign.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030437","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0071288","count":2},{"id":"GO:0072220","count":2},{"id":"GO:0046878","count":2}]},{"hash":"1423633367295909303","title":"Rho signaling and developmental cell-cycle control","description":"The top GO terms point to Rho-mediated signaling and cytoskeletal regulation (GO:0007266), which often coordinates cell movement, adhesion, and secretion (GO:0045956). There is strong representation of development-related processes (heart development, skeletal system development, nervous system development) suggesting roles in morphogenesis. Additionally, cell-cycle related terms (G1/S transition, mitotic cell cycle) and positive regulation of cell-matrix adhesion indicate links between signaling, adhesion, and proliferation. Together, these terms imply a coherent theme of signaling-guided development with control of cytoskeleton, adhesion, and cell division.","confidence":"Medium","size":16,"edges":12,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007266","count":7},{"id":"GO:0045956","count":7},{"id":"GO:0043627","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0007124","count":7}]},{"hash":"441621556025964368","title":"Nuclear chromatin maintenance and cell cycle regulation","description":"This cluster is dominated by GO terms tied to nuclear processes and DNA metabolism: DNA repair, nucleosome assembly, rDNA heterochromatin formation, and tRNA processing, along with cell cycle transitions (G1/S) and mitotic progression. While there are a few outliers (cholesterol biosynthesis, hematopoiesis, cell-matrix adhesion, developmental growth), the shared theme centers on chromatin maintenance and cell-cycle\u2013related regulation. Confidence: Medium","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0030097","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0006334","count":2}]},{"hash":"636661543814302390","title":"Capsule and mycolate cell wall biosynthesis","description":"This cluster is dominated by GO terms for capsule polysaccharide biosynthesis, mycolate cell wall layer assembly, and general cell wall polysaccharide biosynthesis, plus UDP-sugar metabolism, pointing to coordinated production and assembly of bacterial cell envelope components (capsule and cell wall). The overlap of capsule, mycolate, and polysaccharide biosynthetic processes supports a cohesive envelope biosynthesis theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045227","count":2},{"id":"GO:0071769","count":2},{"id":"GO:0018243","count":2},{"id":"GO:0030213","count":2},{"id":"GO:0070592","count":2}]},{"hash":"1156825773927605137","title":"PTM-regulated stress response proteins","description":"The cluster centers on regulatory processes governed by post-translational modifications (sumoylation, ubiquitination) and broad stress- and signaling-related functions (toxic/toxin response, transcription regulation, calcium signaling, endocytosis, metabolism, and mitochondrial dynamics). This points to a set of proteins that modulate cellular responses through PTMs and interconnected signaling pathways rather than a single straightforward pathway, hence a PTM- and stress-regulation label. ","confidence":"Medium","size":16,"edges":103,"triangles":376,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":12},{"id":"GO:0006289","count":8},{"id":"GO:0010637","count":7},{"id":"GO:0006357","count":7},{"id":"GO:0017085","count":7}]},{"hash":"377372767716201396","title":"Unknown","description":"The GO terms span both plant development and signaling (e.g., flower development, brassinosteroid signaling, circadian regulation, phototaxis) and animal immune/neural processes (germinal center formation, B cell signaling, conditioned taste aversion, oocyte maturation, synaptic vesicle fusion) with no evident shared function or interaction among the proteins (edges/triangles are zero). There is no cohesive theme to label a specific biological function or pathway.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002467","count":1},{"id":"GO:0009911","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0009742","count":1},{"id":"GO:0050853","count":1}]},{"hash":"2144372256086349352","title":"Proteoglycan biosynthesis and reproductive development","description":"Top terms point to proteoglycan metabolism (keratan sulfate proteoglycan biosynthetic and proteoglycan metabolic processes) alongside mammary gland development and wound-healing\u2013related tissue remodeling (epithelial proliferation, angiogenesis). The presence of acrrosome reaction regulation and sperm\u2013zona pellucida binding further suggests involvement in reproductive processes. While some terms reflect general cellular maintenance, the dominant signal is extracellular matrix proteoglycan synthesis linked to development and fertility. ","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000045","count":1},{"id":"GO:0034975","count":1},{"id":"GO:0060046","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0060058","count":1}]},{"hash":"371958537660971031","title":"Unknown","description":"The top terms span cell cycle, stress responses, cytoskeletal assembly, multiple signaling pathways (Wnt, electrical coupling, chemokine production), and immune/cardiac-related processes, with no clear, unifying function connecting the proteins. The lack of edges further supports the absence of a cohesive interaction theme.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0051260","count":2},{"id":"GO:0010650","count":2},{"id":"GO:0051017","count":2}]},{"hash":"1477626263430765042","title":"Diverse small-molecule metabolism and detoxification","description":"Proteins show enrichment across multiple catabolic and biosynthetic processes for various small molecules (biotin, uracil, prostaglandin, phospholipids) and detoxification (response to toxic substances, oxidant detoxification). The terms are broad and diverse, suggesting a general metabolic and detoxifying role rather than a single cohesive pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0006212","count":3},{"id":"GO:0009820","count":3},{"id":"GO:0019433","count":3}]},{"hash":"2189995554715910352","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The cluster is dominated by GO terms for polyubiquitination and ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation, indicating a core theme of protein tagging for destruction by the ubiquitin-proteasome system. Additional terms touch on stress responses and neuronal regulation, which can be linked to ubiquitin-driven control of protein turnover in stress and cell-cycle contexts, supporting a coherent focus on ubiquitin-mediated degradation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":10},{"id":"GO:0042787","count":7},{"id":"GO:0000083","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0071406","count":6}]},{"hash":"31693780992638005","title":"Insulin/IGF Signaling with Rho/Rac GTPase Regulation","description":"The terms show insulin and IGF receptor signaling pathways alongside small GTPase signaling, including regulation of Rac and Rho activities, pointing to a theme of growth-factor\u2013dependent signaling coupled to cytoskeletal regulation. Some terms touch on immune and vascular processes (neutrophil degranulation, extravasation, blood vessel remodeling) that may reflect broader roles of these pathways, but the core pattern centers on insulin/IGF signaling linked to Rho/Rac-mediated signal transduction.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":2},{"id":"GO:1904424","count":2},{"id":"GO:0002692","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0007264","count":2}]},{"hash":"1700369388900799369","title":"Organelle organization and gene expression","description":"The cluster\u2019s GO terms point to structural organization of cellular compartments (nucleus, ER, lamin) together with gene expression processes (tRNA metabolism, translation fidelity, transcription regulation, lipid biosynthesis). Although there are no observed edges linking proteins in this cluster, the shared themes suggest a link between organizing intracellular compartments and regulating transcription/translation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006997","count":2},{"id":"GO:0006399","count":1},{"id":"GO:0006450","count":1},{"id":"GO:1900832","count":1},{"id":"GO:1900829","count":1}]},{"hash":"730924374352457886","title":"Multicellular Development and Differentiation","description":"This cluster shows enrichment for developmental and differentiation processes (multicellular organism development, myoblast fusion, and related cell-cycle terms), with additional neural and cardiac context signals (long-term synaptic potentiation, SA node regulation). The terms point to a broad developmental/regulatory program rather than a single pathway, despite some noise (e.g., plant hormone signaling). ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007520","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060291","count":3}]},{"hash":"259188113997429766","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The Top Terms show multiple processes tied to actin dynamics: actin filament assembly and polymerization, podosome and ruffle assembly, cell spreading, and maintenance of cell polarity and shape, plus regulation of GTPases that control cytoskeletal rearrangements. This points to a cohesive cluster of proteins involved in remodeling the actin cytoskeleton and governing cell adhesion and polarity.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0006516","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0046785","count":2}]},{"hash":"813785398548254668","title":"Cellular Stress and Metabolic Response","description":"The top GO terms indicate responses to xenobiotics and toxins, nutrient and hormone signaling, and various metabolic processes (serine biosynthesis, phenylacetate catabolism), with DNA repair also represented. Together these point to a theme of cellular stress sensing and metabolic adaptation, though an outlier term for heart development is present.","confidence":"Medium","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1645228538134301278","title":"Neural morphogenesis and cell-cycle regulation","description":"This cluster links neuronal development processes (dendrite morphogenesis; negative regulation of axonogenesis; regulation of synaptic plasticity) with cell-cycle machinery (DNA replication; mitotic cell cycle; centrosome cycle) and broader developmental events (embryonic cranial skeletal morphogenesis; angiogenesis; focal adhesion regulation), suggesting a coordinated program of neurodevelopment coupled to cell division and tissue morphogenesis.","confidence":"Medium","size":15,"edges":32,"triangles":42,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0048701","count":9},{"id":"GO:0000278","count":8},{"id":"GO:0000186","count":8},{"id":"GO:0045766","count":8}]},{"hash":"1360027345108787349","title":"Rho GTPase\u2013Mediated Cytoskeleton and Vascular Remodeling","description":"Based on the dominant GO terms, these proteins are linked to small GTPase signaling that governs actin dynamics (filopodium and stress fiber assembly, cell spreading) and cytoskeletal remodeling, and to vascular-related processes (permeability, extravasation, and remodeling). The presence of neutrophil degranulation regulation hints at leukocyte trafficking as well, together suggesting a coherent role for Rho/Rac/Cdc42-type pathways in cytoskeleton-driven cell movement in vascular and immune contexts.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0043552","count":2},{"id":"GO:0007480","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0002692","count":2}]},{"hash":"712937268919728052","title":"Actin Cytoskeleton Remodeling in Muscle and Neurons","description":"The cluster is dominated by actin-related processes (actin filament movement, nucleation, Arp2/3-mediated nucleation, and actin bundle assembly) and includes skeletal muscle contraction, with a single term linking to behavioral responses to cocaine. This points to a shared function in dynamic actin remodeling that underpins muscle function and neuronal structural changes, with additional context from transcription regulation and development terms. ","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0007275","count":1},{"id":"GO:0030048","count":1},{"id":"GO:0048148","count":1},{"id":"GO:0032233","count":1}]},{"hash":"1920826227089266818","title":"Signaling Pathways and Immune Development","description":"Top GO terms suggest a core of signal transduction activities (insulin receptor signaling, PI3K/AKT pathway, GPCR desensitization) with immune and developmental contexts (hemopoiesis, IL-7 response, placenta development, apoptosis). This pattern implies proteins that participate in signaling networks shaping cell growth, immune function, and developmental processes, hence the label.","confidence":"Medium","size":15,"edges":11,"triangles":0,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010763","count":5},{"id":"GO:0008286","count":4},{"id":"GO:0002029","count":4},{"id":"GO:0043491","count":4},{"id":"GO:0030097","count":4}]},{"hash":"483079620817294104","title":"Unknown","description":"The GO terms are mixed across transport, stress responses, and plant development with no clear common function linking them, and the cluster has no edges or triangles to suggest a cohesive pathway or process. This makes it impractical to assign a specific, representative label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0099133","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0015777","count":1},{"id":"GO:0046689","count":1},{"id":"GO:0070731","count":1}]},{"hash":"625625825848521822","title":"Unknown","description":"The GO terms are diverse, spanning glycerol and uracil catabolism, thiamine biosynthesis, various signaling pathways (cytokinin-activated signaling, cellular response to cAMP), and stress/immune-related responses (lipopolysaccharide response, redox homeostasis), with several obsolete terms. This lack of a single cohesive functional theme makes it hard to assign a precise, specific label to the cluster.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019563","count":3},{"id":"GO:0009089","count":3},{"id":"GO:0006212","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0045793","count":3}]},{"hash":"219495233580665010","title":"Forebrain development and ciliogenesis","description":"This cluster is dominated by GO terms related to neural development (telencephalon development, forebrain development, multicellular organism development) and cilium assembly, suggesting proteins that function together in brain development with ciliary processes. While some terms are more general (mitotic cell cycle, transcription), the co-occurrence of telencephalon/forebrain development with cilium assembly points to a plausible shared role in neural development linked to ciliogenesis.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0060271","count":3},{"id":"GO:0021537","count":3},{"id":"GO:2001162","count":2}]},{"hash":"1355312243585420380","title":"Central Carbon Metabolism and Biosynthesis","description":"The cluster's top GO terms center on core energy pathways (glycolysis, TCA cycle, pyruvate to acetyl-CoA) and biosynthesis (fatty acid, malonyl-CoA, amino acid and nucleotide metabolism), pointing to a cohesive theme of central metabolism and precursor biosynthesis; sodium transport appears as a secondary association but does not define the main function.","confidence":"High","size":15,"edges":30,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006094","count":4},{"id":"GO:0006086","count":4},{"id":"GO:0033512","count":4},{"id":"GO:0006814","count":4}]},{"hash":"1197219616131098920","title":"Transcription Regulation & Chromatin Modification","description":"The cluster is dominated by GO terms for DNA-templated transcription and histone methylation (H3K4, H3K79), along with mitotic cell cycle, pointing to regulation of gene expression and chromatin state during cell division. Additional terms touch on vesicle trafficking and GTPase activity, and some brain/gonad development terms suggest developmental contexts where gene regulation is key. Overall, the strongest signal concerns transcriptional control and chromatin modification, with other processes acting as supporting themes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1869035381958526721","title":"Chromatin assembly and transcription initiation","description":"The cluster is dominated by GO terms for nucleosome assembly, chromatin organization, histone-related processes, and transcription initiation at RNA polymerase II promoters, along with rDNA heterochromatin formation. Despite the presence of obsolete terms, the core theme suggests nuclear chromatin dynamics and transcription regulation, with some incidental rRNA processing signals. ","confidence":"High","size":15,"edges":13,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0016584","count":2},{"id":"GO:0000462","count":2}]},{"hash":"641821332278586055","title":"Actin Cytoskeleton Remodeling and Development","description":"Based on the top GO terms, the cluster is enriched for actin filament formation and movement, indicating cytoskeleton remodeling. The presence of skeletal muscle fiber development, multicellular organism development, and regulation of Rho signaling further ties the proteins to actin-driven morphogenesis and cytoskeletal control across tissues. A developmental term like anterior midgut invagination and a neuronal/behavioral term (cocaine response) may reflect broader roles of actin dynamics in development and neural remodeling. Overall, the cluster centers on actin-based cytoskeleton dynamics during development and morphogenesis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0060316","count":1},{"id":"GO:0007275","count":1}]},{"hash":"688244443743620156","title":"Developmental morphogenesis and tissue organization","description":"The cluster\u2019s top GO terms cluster around developmental processes and tissue organization, including somitogenesis, olfactory nerve structural organization, muscle attachment, negative regulation of EMT, and skeletal muscle contraction. This suggests the proteins are enriched for roles in morphogenesis and structural organization during development, rather than a single enzymatic pathway; the metabolic terms are sparse and likely background noise.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010719","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0014809","count":2},{"id":"GO:0016203","count":2},{"id":"GO:0021629","count":2}]},{"hash":"956943256024878189","title":"Nucleocytoplasmic RNA processing and ribosome biogenesis","description":"This cluster centers on nuclear-to-cytoplasmic RNA handling (mRNA export) and ribosome assembly, with supporting processes in protein quality control (ERAD), chromatin assembly, and stress-related energy regulation (PARP-related activity and hypoxia response). The convergence of RNA processing/export and ribosome biogenesis, along with related transport and quality-control pathways, suggests a cohesive theme of fundamental nucleocytoplasmic maintenance and translation readiness.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:1990966","count":3},{"id":"GO:0070212","count":3},{"id":"GO:2001170","count":3},{"id":"GO:0042254","count":2}]},{"hash":"1229584156606291686","title":"Unknown","description":"This cluster lists GO terms spanning mitotic cell cycle transitions, unfolded protein response, cilium assembly, innate immune signaling, histone modification, and development across diverse contexts, with no single cohesive function linking the proteins. The absence of edges and a unifying theme supports assigning an Unknown label rather than a specific function.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009736","count":8},{"id":"GO:0051291","count":7},{"id":"GO:0006986","count":6},{"id":"GO:0045842","count":6},{"id":"GO:1905515","count":6}]},{"hash":"881250610264925238","title":"Cardiac development and electrical signaling","description":"Most represented terms relate to heart function and development: regulation of heart rate, regulation of store-operated calcium channel activity, and regulation of cell communication by electrical coupling involved in cardiac conduction. These indicate a coherent theme around cardiac development and electrophysiology, with other developmental terms reflecting broader developmental roles but not altering the core cardiac focus.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0002027","count":2},{"id":"GO:1901339","count":2},{"id":"GO:0060487","count":2}]},{"hash":"1209030182122263453","title":"Mitochondrial Transporters and Energy Metabolism","description":"Most top terms point to transmembrane transport across mitochondrial and cellular membranes, including coenzyme A, L-ornithine, ADP, phosphate, and the malate-aspartate shuttle. Heme transport and apoptotic mitochondrial changes, plus adaptive thermogenesis, reinforce a theme of mitochondrial transport and energy metabolism. The proteins likely function as transporters or regulators linked to mitochondrial bioenergetics.","confidence":"High","size":15,"edges":20,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035349","count":13},{"id":"GO:0008637","count":13},{"id":"GO:0000066","count":13},{"id":"GO:0015886","count":13},{"id":"GO:0015866","count":13}]},{"hash":"1181881029346857752","title":"Nuclear transport and cytoskeletal adhesion regulators","description":"This cluster features GO terms for importing NLS-bearing proteins into the nucleus, chromatin remodeling during transcription initiation, and positive regulation of GTPase activity, suggesting a link between nuclear regulation and cytoskeletal dynamics. It also contains adherens junction assembly and calcium-dependent cell\u2013cell adhesion, plus cytokinesis regulation, implying roles in cell division and adhesion, with developmental terms indicating broader tissue contexts. Overall, the shared theme centers on coordinating nuclear processes with adhesion and cytoskeletal remodeling.","confidence":"Medium","size":15,"edges":34,"triangles":55,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0048096","count":6},{"id":"GO:0032467","count":6},{"id":"GO:0034333","count":6}]},{"hash":"1238629390389454532","title":"Immune and organ development","description":"The terms point to immune signaling (B cell receptor signaling, myeloid differentiation) and broad organ morphogenesis (thymus, thyroid, face development), suggesting a cluster tied to developmental processes with immune system involvement rather than a single specific pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0020021","count":6},{"id":"GO:0002318","count":6},{"id":"GO:0030878","count":6}]},{"hash":"1522118933586572346","title":"Developmental signaling with metal ion homeostasis","description":"The GO terms cluster around signaling pathways (Rho signaling, GPCR signaling, calcium-dependent exocytosis) and developmental processes across nervous, cardiac, and skeletal systems, with additional, milder signals of zinc/iron ion homeostasis, suggesting a theme of signaling in development linked to metal ion regulation.","confidence":"Medium","size":15,"edges":19,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0007124","count":3},{"id":"GO:0007507","count":3}]},{"hash":"576865782541366064","title":"Membrane trafficking and lipid transport","description":"The cluster\u2019s top GO terms are dominated by membrane-related processes: endoplasmic reticulum to Golgi vesicle transport, cotranslational protein targeting to membranes, and fatty acid transmembrane transport. These point to a core theme of membrane trafficking/transport and lipid movement. A few outliers (heme biosynthesis, plant cell wall assembly, mitotic regulation, miRNA processing, and lung differentiation) are less connected to this theme, suggesting some functional diversity or annotation noise, but the membrane-centric terms provide the most coherent story for the cluster. ","confidence":"Medium","size":15,"edges":18,"triangles":5,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006783","count":1},{"id":"GO:0070453","count":1},{"id":"GO:1902001","count":1},{"id":"GO:0071668","count":1}]},{"hash":"2211970109047156860","title":"Cadmium Stress and Ubiquitin-Proteasome Proteolysis","description":"The dominant GO terms point to ubiquitin tagging and proteasomal degradation (polyubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; ubiquitin-dependent protein catabolic process) with additional stress-related signals such as cadmium ion response and oxidative stress\u2013induced apoptotic signaling, plus some innate immune/defense hints. This suggests a proteostasis-centered cluster activated by metal-induced stress, hence the label Cadmium Stress and Ubiquitin-Proteasome Proteolysis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000209","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0000083","count":4},{"id":"GO:0042787","count":4}]},{"hash":"434295601764812779","title":"Glycolipid and GPI-anchor Biosynthesis","description":"Top GO terms indicate lipid and glycoconjugate biosynthesis, including glycolipid, phospholipid, and GPI anchor formation, as well as ER-associated protein glycosylation. Although there are some unrelated terms (e.g., lipopolysaccharide biosynthesis, central carbohydrate metabolism), the strongest signal is assembly of membrane lipids and glycans. This supports labeling the cluster as primarily involved in glycolipid and GPI-anchor biosynthesis.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":1},{"id":"GO:0009413","count":1},{"id":"GO:0009247","count":1},{"id":"GO:0006006","count":1},{"id":"GO:0005978","count":1}]},{"hash":"262674808062714861","title":"Cell cycle and division","description":"The cluster is dominated by GO terms for the cell cycle and cell division, with supportive signals from Wnt signaling and actin filament bundle assembly that are related to proliferation and cytoskeletal reorganization during division. Some terms (e.g., apoptosis and chemokine production) appear as noise, but the core theme ties to cell cycle progression and division.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0010650","count":1},{"id":"GO:0051017","count":1}]},{"hash":"1335644280074368003","title":"Translation initiation and preinitiation complex assembly","description":"The proteins in this cluster are enriched for GO terms related to translation initiation (IRES-dependent viral translational initiation) and the formation of the translation preinitiation complex, suggesting a cohesive role in initiating protein synthesis. While other terms like phosphorylation and deneddylation appear, the strongest shared function is involvement in translation initiation machinery.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0019509","count":2}]},{"hash":"941174283005281408","title":"Innate Immune Signaling and Inflammation","description":"This cluster centers on innate immune sensing and inflammatory signaling, with GO terms spanning NOD2 and TLR7 pathways, NF-kappaB regulation, JAK-STAT signaling, NLRP3 inflammasome assembly, and consequent interferon and chemokine production. The co-occurrence of these pathways suggests a cohesive theme of immune sensing and inflammatory response.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0070431","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0034346","count":2}]},{"hash":"1911710949546646999","title":"Unknown","description":"The cluster includes terms across cell cycle, transport, multiple signaling pathways (GPCR, glucose signaling), sensory perception of bitter taste, and morphogenesis. This spread suggests no single cohesive biological function dominating the set, so a concise, representative label cannot be confidently assigned.","confidence":"","size":15,"edges":18,"triangles":5,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006828","count":2},{"id":"GO:0010513","count":1},{"id":"GO:0055108","count":1}]},{"hash":"1084840220652294585","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":24,"triangles":7,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010815","count":4},{"id":"GO:0009103","count":3},{"id":"GO:0009699","count":3},{"id":"GO:0009244","count":3},{"id":"GO:0019673","count":3}]},{"hash":"809056076278682535","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"Top terms are dominated by ubiquitination and proteasomal protein catabolism (e.g., protein polyubiquitination, ubiquitin-dependent proteolysis, SCF-dependent proteasomal degradation), indicating a core function in tagging and degrading proteins. Some developmental-related terms may reflect regulatory roles of ubiquitin signaling, but the dominant theme is the ubiquitin\u2013proteasome system driving protein turnover.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":9},{"id":"GO:0042787","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0006516","count":8},{"id":"GO:0021993","count":8}]},{"hash":"1849261373351837135","title":"Unknown","description":"The set combines transcriptional activity with DNA replication/repair signals, ubiquitination, muscle homeostasis, and various development-related processes (gastrulation, chorion development), with several GO terms marked obsolete. The lack of a clear, unified biological theme and no interactions among proteins makes a single representative function hard to assign.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010510","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0007369","count":2},{"id":"GO:0000209","count":2}]},{"hash":"537135301649021040","title":"Pancreatic endocrine development and ciliogenesis","description":"The key terms cluster around endocrine pancreas development, type B pancreatic cell differentiation/maturation, and cilium assembly/motility, indicating a theme of pancreatic endocrine cell formation linked with ciliogenesis. Additional terms on transcription regulation and chromatin remodeling accompany development, suggesting regulatory layers during differentiation; other tissue terms reflect broader developmental processes but do not override the pancreatic-ciliogenesis focus.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":2},{"id":"GO:0021696","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0060285","count":2},{"id":"GO:0003309","count":2}]},{"hash":"1548798540621247832","title":"Membrane trafficking and vesicle exocytosis regulation","description":"The top GO terms point to regulation of vesicle exocytosis and various membrane trafficking events (vacuole fusion, membrane addition at cytokinesis) and organelle contact (mitochondrion-ER tethering), with supporting signals from Robo and nervous system development pathways. This pattern suggests a cohesive cluster centered on membrane dynamics and vesicle trafficking, spanning neuronal signaling contexts and broader cellular trafficking roles.","confidence":"Medium","size":14,"edges":44,"triangles":60,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":9},{"id":"GO:0010796","count":9},{"id":"GO:0031384","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0007399","count":9}]},{"hash":"1490139028777627965","title":"Developmental morphogenesis and cell migration","description":"The top GO terms cluster around diverse developmental processes (nervous system, hair follicle morphogenesis, spermatid development, salivary gland formation) and include actin cytoskeleton remodeling and cell motility (lamellipodium/podosome assembly, hemocyte migration), indicating a unifying theme of developmental morphogenesis with cytoskeletal dynamics and movement.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021762","count":6},{"id":"GO:0010592","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0035099","count":5}]},{"hash":"651675605562445681","title":"Synaptic vesicle trafficking and spine development","description":"The cluster shows enrichment for synaptic vesicle endocytosis/exocytosis, regulation of dendritic spine development, and excitatory postsynaptic potentials, suggesting a cohesive role in synaptic transmission. Supporting terms like multivesicular body sorting and small GTPase signaling align with vesicle trafficking and actin remodeling at synapses; a few terms on mitotic cycle or ossification may be incidental overlaps but do not define the main theme.","confidence":"Medium","size":14,"edges":71,"triangles":170,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0071803","count":7},{"id":"GO:0007264","count":7},{"id":"GO:0060079","count":7}]},{"hash":"1841706708602639423","title":"Metabolic Biosynthesis and Transcription Components","description":"The top GO terms indicate a focus on biosynthetic pathways (fatty acid homeostasis, quinolinate NAD biosynthesis, protoporphyrinogen IX for heme, serine and pyruvate biosynthesis) alongside DNA-templated transcription, suggesting a cluster of proteins involved in core metabolism with some transcription-related roles. This combination points to a metabolism-centered protein group with potential links to gene expression regulation. ","confidence":"Medium","size":14,"edges":24,"triangles":19,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055089","count":3},{"id":"GO:0019805","count":3},{"id":"GO:0006782","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043923","count":2}]},{"hash":"1411906680153447956","title":"Mitochondria-ER contact and redox regulation","description":"The cluster prominently features mitochondria-ER tethering (GO:1990456) and regulation of redox processes and oxidative phosphorylation (GO:0045454, GO:0090324, GO:1903206). It also shows Rab-mediated signaling and vesicle trafficking (GO:0032482, GO:0032889), suggesting a coordinated module where organelle contact sites interface with energy/redox balance and intracellular transport. Additional terms tied to membrane remodeling and cell cycle hint at broader coordination of metabolism with division. Overall, the data point to a function centered on mitochondria-ER contacts regulating redox state and trafficking; hence the proposed label.","confidence":"Medium","size":14,"edges":14,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090394","count":3},{"id":"GO:1903206","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0032889","count":2}]},{"hash":"1793300727630530509","title":"Oxidative stress response and redox homeostasis","description":"The top GO terms cluster around redox biology: cell redox homeostasis, cellular response to hydrogen peroxide, cellular response to oxidative stress, and cellular oxidant detoxification, with cytochrome complex assembly suggesting involvement of electron transport. A few terms about Rho signaling, actin localization, and cell division may reflect secondary stress-adaptive changes or coordination with cytoskeletal dynamics, but the dominant theme is redox regulation and oxidative stress response.","confidence":"High","size":14,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017004","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0034599","count":3}]},{"hash":"1071496783595280730","title":"Immune signaling and cytoskeletal remodeling","description":"The proteins cluster around innate and adaptive immune signaling (innate immunity, interferon signaling, T cell receptor signaling) and cytoskeletal dynamics (podosome assembly, actin branching, small GTPase signaling), suggesting a cohesive role in immune-related signal transduction coupled to actin remodeling. Some terms like hippocampus development or Wnt/EGFR signaling may reflect broader signaling contexts rather than tissue-specific functions, but the dominant theme is immune signaling linked to cytoskeletal changes.","confidence":"Medium","size":14,"edges":21,"triangles":13,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0060335","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1800943310348501880","title":"Spliceosome-Mediated mRNA Splicing","description":"This cluster is strongly tied to mRNA splicing via the spliceosome (GO:0000398; GO:0048026; GO:0045292) and includes components involved in spliceosome assembly and RNA processing, indicating core splicing machinery; regulatory ncRNA-mediated gene silencing is a related RNA-processing context, reinforcing the RNA-centric theme.","confidence":"High","size":14,"edges":69,"triangles":187,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0000398","count":7},{"id":"GO:1901407","count":6},{"id":"GO:1903608","count":6}]},{"hash":"1810437728257975606","title":"Broad Signaling and Differentiation Cluster","description":"The top GO terms show involvement in multiple signaling pathways (insulin receptor, GPCR desensitization, PI3K/AKT), transcriptional control, and diverse developmental/immune processes (dendrite morphogenesis, hematopoiesis, IL-7 response, apoptosis), plus reproductive function (sperm capacitation). This pattern suggests proteins that participate in general signal transduction and regulation of cell fate across tissues, rather than a single, cohesive pathway.","confidence":"Medium","size":14,"edges":7,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048813","count":9},{"id":"GO:0008286","count":9},{"id":"GO:0002029","count":9},{"id":"GO:0043491","count":9},{"id":"GO:0030097","count":9}]},{"hash":"2158399489569470849","title":"Beta-lactam Antibiotic Response and Beta-lactamase Regulation","description":"The top GO terms are dominated by beta-lactam and antibiotic-related processes: nylon catabolic process, beta-lactam antibiotic catabolic process, response to antibiotic, and regulation of beta-lactamase activity. This points to a core theme around processing or responding to beta-lactam antibiotics and regulating beta-lactamase activity, which is central to antibiotic metabolism/resistance. A few other terms (e.g., B cell chemotaxis, satellite cell activation) appear likely as annotation noise or less related, but do not override the main antibiotic-focused theme. Overall, the cluster most plausibly reflects Beta-lactam antibiotic response and beta-lactamase regulation. ","confidence":"Medium","size":14,"edges":28,"triangles":24,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0019876","count":4},{"id":"GO:0030655","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0033252","count":4},{"id":"GO:0033234","count":3}]},{"hash":"17130580844207492","title":"Drosophila Development and Nuclear Processes","description":"The top terms cover both core nuclear/nucleic-acid metabolism (spindle assembly, lagging-strand elongation, rRNA base methylation, phenylalanyl-tRNA aminoacylation, mitochondrial DNA repair, DNA ligation) and several developmental processes (dorsal/ventral axis specification, ectodermal placode development, female gonad development, heat-shock\u2013related chromatin puffing). This spread suggests a cluster spanning general nuclear/nucleic-acid activities alongside developmental regulatory roles in a Drosophila context, rather than a single cohesive function.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:0070475","count":1},{"id":"GO:0006432","count":1},{"id":"GO:0008069","count":1},{"id":"GO:0071696","count":1}]},{"hash":"1420350311207845808","title":"Mitotic Regulation and Spindle Assembly","description":"Based on the prominent GO terms, this cluster centers on mitosis and spindle dynamics (mitotic cell cycle; mitotic spindle assembly) and on signaling through protein phosphorylation (positive regulation of serine/threonine kinase activity; protein autophosphorylation). Additional terms point to protein complex formation (homooligomerization/heterotrimerization) and auxiliary processes like mRNA transport and hypoxic response, which can accompany cell-cycle\u2013related regulation. Overall, the proteins appear to participate in coordinating mitotic progression via phosphorylation-dependent signaling and assembly of regulatory protein complexes.","confidence":"High","size":14,"edges":9,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0070208","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071456","count":4}]},{"hash":"1443848529012244267","title":"Proteostasis and Stress Response","description":"This cluster centers on protein turnover and quality control (ubiquitin-proteasome pathways, polyubiquitination) and includes components of ER-Golgi transport and heat-shock-related responses, as well as cellular responses to metal stress (cadmium). While it also contains terms related to DNA replication and telomere maintenance, the strongest and most coherent theme is maintaining protein homeostasis under stress, i.e., proteostasis and associated stress responses.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0042787","count":3}]},{"hash":"1745095159878881111","title":"Developmental Growth Signaling in Muscle and Nerve","description":"These proteins cluster around developmental growth and morphogenesis, with strong ties to muscle formation (myoblast fusion, cell-matrix adhesion) and neural development (axonogenesis), plus growth factor signaling (VEGF and PDGF receptor pathways). The mix of mitotic cell cycle and adhesion terms supports a theme of proliferative growth and tissue organization during development. There are a couple of obsolete phosphorylation terms in the list, but they do not alter the overall interpretation. Overall, the cluster seems best described as developmental growth signaling coordinating muscle and nerve development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001954","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0048638","count":12},{"id":"GO:0007520","count":12},{"id":"GO:0021952","count":12}]},{"hash":"1637037909281817244","title":"Ribosome Biogenesis and Cell Cycle Regulation","description":"The top GO terms point to ribosome biogenesis and rRNA maturation, along with DNA-templated transcription and mitotic cell cycle processes, with additional signals related to growth and development, suggesting a coherent cluster of genes involved in ribosome production and cell proliferation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0000463","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0000466","count":6}]},{"hash":"1146653124836145837","title":"Xenobiotic metabolism and epigenetic regulation","description":"The cluster includes GO terms for xenobiotic response and epoxygenase P450 pathways, pointing to detoxification/metabolic processing. It also features methylation and histone demethylation terms, suggesting epigenetic regulation of gene expression. Vitamin D response and kinase activity modulation further support a theme of signaling-linked transcriptional regulation. While some terms are broad or obsolete, the dominant pattern ties detox/metabolism to epigenetic control. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032259","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0019373","count":3},{"id":"GO:0019835","count":3}]},{"hash":"1366181815840556559","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for translation-related terms (initiation, termination, translation, cytoplasmic translation) and ribosomal large subunit biogenesis, indicating a core function in protein synthesis and RNA processing; some peripheral terms appear as noise, but the dominant theme is ribosome assembly and translation control.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0051301","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0014009","count":2}]},{"hash":"1619519295018979926","title":"Unknown","description":"The top terms span bacterial biosynthesis (lipopolysaccharide LPS biosynthesis and core region, poly-hydroxybutyrate) and animal neural development (motor neuron migration and axon guidance) plus adhesion/metabolism terms, showing no single cohesive function or pathway for the cluster. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0042619","count":4},{"id":"GO:0097477","count":4},{"id":"GO:0070527","count":4}]},{"hash":"1246999293619951959","title":"Ubiquitin-dependent protein turnover","description":"The top GO terms center on ubiquitination processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination, and regulation of ubiquitination), implying a role in protein stability and signaling. Associated developmental and immune terms (skeletal muscle/ distal tubule morphogenesis, germinal center formation, B cell receptor signaling) suggest ubiquitin-mediated regulation across tissues and cell-cycle\u2013related processes. Overall, the cluster likely reflects ubiquitin-dependent protein turnover affecting development and signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0072156","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0002467","count":2},{"id":"GO:0050853","count":2}]},{"hash":"371025299092393259","title":"Stress-induced protein turnover and cell cycle control","description":"The top GO terms point to cellular stress responses (cadmium ion exposure; oxidative stress-related signaling) combined with protein degradation pathways (ubiquitin-dependent proteolysis, SCF-proteasome). There are also terms related to cell cycle regulation and DNA replication initiation, suggesting coordination between stress response, protein quality control, and cell cycle decisions. Endocytosis and neuronal context terms may reflect broader trafficking and neuron-specific stress responses, but the core theme appears to be stress-driven protein turnover linked with cell cycle control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0000083","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0072583","count":2}]},{"hash":"1469114042903424413","title":"Cross-tissue Development and Differentiation","description":"The top GO terms point to development across multiple tissues (brain, uterus, gonad, embryonic morphogenesis) and neuronal differentiation, with supporting transcriptional activity and a behavioral component, suggesting a general theme of developmental processes rather than a single specific pathway.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001662","count":2}]},{"hash":"406115407687408931","title":"DNA replication and repair cluster","description":"The GO terms are dominated by DNA replication, base-excision repair, nucleotide-excision repair, and DNA recombination, with related chromatin maintenance hints (histone modification). This points to a core genome maintenance and recombination function, while seemingly tangential signaling terms are likely incidental. ","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0051568","count":2}]},{"hash":"906805890197081775","title":"Growth hormone/insulin secretion and morphogenesis regulators","description":"The proteins show enrichment for positive regulation of growth hormone secretion and insulin secretion, suggesting involvement in endocrine signaling, and also include several morphogenesis terms (anterior midgut invagination, imaginal disc-derived leg morphogenesis, pericardium morphogenesis, midbrain morphogenesis) plus Rho signaling regulation. This points to a broader theme of developmental signaling coordinating secretion with tissue morphogenesis, rather than a single narrow function. The connections are plausible but not tightly clustered, hence a Medium confidence.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060124","count":2},{"id":"GO:0035025","count":2},{"id":"GO:0035774","count":2},{"id":"GO:0043552","count":1},{"id":"GO:0007375","count":1}]},{"hash":"428569915886473146","title":"Mitotic control and signaling pathway regulation","description":"The cluster shows strong links to cell cycle processes (cell cycle, kinetochore localization, meiotic spindle disassembly) along with activity for peptidyl-tyrosine dephosphorylation and negative regulation of major signaling pathways (ERK/MAPK, PI3K/AKT, and Notch). Together, these features point to proteins that coordinate progression through mitosis/meiosis while dampening proliferative signaling, making this a cohesive theme of cell-cycle control coupled with signaling modulation.","confidence":"High","size":14,"edges":83,"triangles":279,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":10},{"id":"GO:0007049","count":9},{"id":"GO:0000200","count":7},{"id":"GO:0070373","count":7},{"id":"GO:0034501","count":7}]},{"hash":"2293595730264503208","title":"Muscle development and differentiation","description":"The proteins are enriched for skeletal/striated muscle development and differentiation terms (striated muscle development, myoblast fate determination, skeletal muscle tissue regeneration, muscle cell differentiation), suggesting a muscle formation/differentiation program. Other terms are less central to the core theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0014706","count":1},{"id":"GO:0007518","count":1},{"id":"GO:0048671","count":1}]},{"hash":"368659698637538570","title":"Steroid and lipid metabolism","description":"The cluster is enriched for retinoid (retinol/retinal) metabolism and androgen/steroid biosynthetic/catabolic processes, plus diverse lipid biosynthesis (very long-chain fatty acids, sphinganine, mycolic acid) and poly-hydroxybutyrate. Despite some cross-species terms, the common thread is lipid- and steroid-related metabolism, making this label representative.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042574","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0008209","count":6},{"id":"GO:0061370","count":6}]},{"hash":"1403380132514946619","title":"Plant development and carbohydrate metabolism","description":"The terms are dominated by plant-specific processes: positive regulation of flower development and leaf morphogenesis, plus glycoside and carbohydrate catabolic activities, indicating a module centered on plant growth and metabolism. Some terms (nitric oxide regulation, IGF signaling) are less cohesive with this core theme, but do not override the plant-development signal. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0051001","count":3},{"id":"GO:0045019","count":3},{"id":"GO:0046477","count":3},{"id":"GO:0009911","count":3},{"id":"GO:0016139","count":3}]},{"hash":"1024495774436145269","title":"Oxidative Stress Response and Lipid Metabolism","description":"Dominated by oxidative stress responses (cadmium ion and hydrogen peroxide) and redox processes, with supporting lipid and energy metabolism terms suggesting a stress-related metabolic module; a few seed-related terms may reflect broader pleiotropy or annotation noise.","confidence":"Medium","size":14,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0009234","count":2},{"id":"GO:0019629","count":2}]},{"hash":"1093434349734033730","title":"Xenobiotic and metal-stress transporters","description":"This cluster shows enrichment for responses to antibiotics, xenobiotics, and mercury ions, alongside multiple transport-related GO terms such as transmembrane anion transport, teichoic acid transport, cGMP transport, cholesterol efflux, and long-chain fatty acid import into peroxisomes. Taken together, the proteins appear to be membrane transporters involved in environmental/chemical stress responses and substrate transport. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0009877","count":3},{"id":"GO:0099133","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0015777","count":2}]},{"hash":"1490058385334062469","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0006189","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0071555","count":2}]},{"hash":"1197625965518014146","title":"Calcium signaling across heart, muscle, retina, and brain","description":"The top terms highlight calcium-related signaling (Wnt/calcium pathway, store-operated calcium channels) alongside tissue-specific regulatory processes (heart rate and contraction, skeletal muscle and lung epithelial differentiation, astrocyte activation, phototransduction). This points to a cluster of proteins involved in broad, calcium-dependent signaling networks that modulate development and physiological regulation across multiple tissues, rather than a single tissue-specific role.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007223","count":4},{"id":"GO:0048143","count":4},{"id":"GO:2001015","count":3},{"id":"GO:0002027","count":3},{"id":"GO:1901339","count":3}]},{"hash":"2180536433310269340","title":"Carotenoid-derived plant hormone biosynthesis (ABA, strigolactone)","description":"The Top Terms cluster around beta-carotene metabolism, vitamin A biosynthesis, and carotenoid-derived hormones ABA and strigolactone, with supporting retinoid metabolism terms (retinol, retinal) and plant development terms such as secondary shoot formation. This suggests the proteins participate in carotenoid turnover and conversion into signaling molecules that regulate plant growth and stress responses, rather than a single classical pathway. Therefore the label emphasizes the common theme: carotenoid metabolism feeding hormone signaling in plants.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010223","count":1},{"id":"GO:0007468","count":1},{"id":"GO:1901810","count":1},{"id":"GO:0035238","count":1},{"id":"GO:1901601","count":1}]},{"hash":"918313239148021623","title":"Ubiquitin-Dependent Proteolysis and Spindle Regulation","description":"The cluster is dominated by ubiquitin-related terms (ubiquitin-dependent protein catabolic process; protein ubiquitination) and includes spindle assembly, indicating a core theme of ubiquitin-mediated protein turnover linked to mitotic/spindle control. Other signaling terms (Wnt, NOD2) are present but less central, so the label reflects the primary function of the group.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0016055","count":3}]},{"hash":"330985979617367218","title":"Growth Factor and Integrin Signaling in Development","description":"The top GO terms point to multiple signaling pathways\u2014integrin-mediated signaling, insulin receptor signaling, growth hormone receptor signaling, and PDGF receptor signaling\u2014along with related processes like Rho signaling, regulation of cell polarity, and heart development. Additional terms cover ubiquitin-dependent proteolysis, innate immune response, and long-term synaptic potentiation, suggesting the proteins participate in broad, developmentally relevant signaling networks rather than a single, narrow function. This supports a label centered on growth-factor/adhesion signaling in development, hence Growth Factor and Integrin Signaling in Development. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0060396","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1618435727857660158","title":"Cardiac and skeletal muscle development and function","description":"The top GO terms are dominated by muscle-related processes: cardiac right atrium morphogenesis, skeletal muscle tissue regeneration, response to muscle stretch, actin filament bundle assembly, and positive regulation of membrane depolarization during cardiac muscle action potential, as well as electrical coupling. These point to muscle development, remodeling, and excitation-contraction signaling. A few terms (DNA repair, apoptosis) are present but do not dominate the cluster\u2019s theme, making a muscle-focused label appropriate overall.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0097284","count":1},{"id":"GO:0010650","count":1},{"id":"GO:0003213","count":1},{"id":"GO:0051017","count":1}]},{"hash":"1017182360540259011","title":"Developmental transcriptional regulation","description":"The terms center on DNA-templated transcription and regulation of transcription factor activity, alongside development-related processes in brain regions (hippocampus, cerebellar cortex) and heart, plus signaling via TGF-beta and phosphorylation, suggesting a role in controlling gene expression during development across tissues. Despite no reported edges, the shared theme is transcriptional control in developmental contexts.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0021695","count":2}]},{"hash":"96343338314583177","title":"Neuronal actin remodeling and dendritic spine development","description":"The top GO terms cluster around actin-driven remodeling and neuronal structure formation (dendritic spine development, lamellipodium/ruffle assembly, Rac signaling) and include hippocampus development, supporting a neuronal cytoskeleton theme. Some terms also relate to organelle contact and membrane trafficking (mitochondrion-ER tethering, vacuole fusion, cytokinesis membrane addition), but the dominant signal is actin dynamics linked to neuronal morphology.","confidence":"High","size":13,"edges":32,"triangles":25,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060999","count":11},{"id":"GO:0097178","count":11},{"id":"GO:0021766","count":11},{"id":"GO:0010592","count":11},{"id":"GO:0045792","count":11}]},{"hash":"2194344292452638665","title":"Rac-regulated actin cytoskeleton remodeling and adhesion","description":"The top GO terms point to actin-based structures and processes (filopodium and stress fiber assembly, Rac signaling, substrate adhesion-dependent spreading, and related cytoskeletal regulation), suggesting a cohesive theme of actin cytoskeleton remodeling and cell adhesion/motility. Some terms are obsolete or peripheral, but the dominant signal is cytoskeletal dynamics and adhesion.","confidence":"High","size":13,"edges":24,"triangles":10,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":9},{"id":"GO:0046847","count":9},{"id":"GO:0010796","count":9},{"id":"GO:0031384","count":9},{"id":"GO:0000060","count":9}]},{"hash":"892008822816316897","title":"Actin Cytoskeleton Remodeling in Neurons and Synapses","description":"This cluster centers on actin dynamics and cytoskeletal remodeling, with multiple GO terms for actin polymerization, ruffle and stress fiber assembly, and formin-mediated actin cable formation, paired with neuronal-specific processes like dendritic spine development, hippocampus development, and regulation of synaptic vesicle exocytosis. These together suggest a theme of actin-driven remodeling underlying spine maturation and synaptic communication; a broad mitotic cell cycle term is present but not defining. ","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0060999","count":6},{"id":"GO:0030838","count":6},{"id":"GO:0097178","count":6},{"id":"GO:0010796","count":6}]},{"hash":"24472253353450850","title":"Actin-driven cytoskeleton remodeling in immune signaling","description":"The cluster is dominated by actin dynamics\u2013related processes (filopodium, podosome, ruffle, actin polymerization) plus adhesion/polarity and immune functions (endocytosis, phagocytic engulfment, T cell receptor signaling, synapse plasticity), indicating coordinated cytoskeletal remodeling underpinning immune cell motility, adhesion, phagocytosis, and activation.","confidence":"High","size":13,"edges":32,"triangles":17,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071803","count":8},{"id":"GO:1900026","count":8},{"id":"GO:0046847","count":8},{"id":"GO:0030838","count":7},{"id":"GO:0097178","count":7}]},{"hash":"27135836549744689","title":"Neuronal development and actin remodeling","description":"The proteins show enrichment for brain development, actin polymerization, filopodium assembly, cell polarity, adhesion-related spreading, and regulation of synaptic vesicle exocytosis, indicating coordinated neuronal morphogenesis driven by actin dynamics and vesicle trafficking.","confidence":"High","size":13,"edges":38,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0016567","count":4},{"id":"GO:2000300","count":4}]},{"hash":"2139215130330389143","title":"RNA splicing and post-transcriptional regulation","description":"The terms cluster around RNA processing and post-transcriptional control: multiple spliceosome-related processes (cis/splicing, alternative splicing, splicing regulation), mRNA maturation (polyadenylation), mRNA stability under stress, and RNA silencing by miRNA and regulatory ncRNA, indicating a cohesive theme of RNA processing and gene expression regulation after transcription.","confidence":"High","size":13,"edges":20,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2}]},{"hash":"1359270254104302300","title":"Metabolic Regulation and Cellular Stress","description":"The proteins show involvement in diverse metabolic processes (gluconeogenesis, GTP biosynthesis, hydrogen sulfide production, cysteine biosynthesis) and stress/immune responses (cellular response to interleukin-4, glucose starvation), along with auxiliary roles in ion transport, cell cycle regulation, nuclear transport, and protein oligomerization. There isn\u2019t a single cohesive pathway, but a broad theme of metabolism and cellular stress signaling, which justifies this label.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":7,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0071353","count":6},{"id":"GO:0006813","count":6},{"id":"GO:0070814","count":5},{"id":"GO:0030071","count":5},{"id":"GO:0045722","count":5}]},{"hash":"916114201147125369","title":"Membrane transport and xenobiotic response","description":"The GO terms emphasize various transport activities across membranes (xenobiotic transmembrane transport, metal/anion transport, peroxisomal fatty acid import, peptide export, teichoic acid transport, heme transport) together with responses to xenobiotic stimuli and mercury exposure. This suggests proteins in this cluster commonly function in moving small molecules or metals across membranes and handling xenobiotic stress, justifying the label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048873","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0099133","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0046689","count":2}]},{"hash":"2067926766322374017","title":"Spinal cord neuron specification and cytoskeleton organization","description":"The cluster prominently features GO terms tied to spinal cord development and neuron specification (ventral interneuron specification; motor neuron cell fate specification) along with cytoskeletal remodeling signals (actin bundle assembly; cell\u2013cell junction organization), suggesting a coherent theme of neural differentiation in the spinal cord and associated cytoskeletal dynamics. Some metabolic terms are present but appear secondary to the neural specification/cytoskeleton pattern.","confidence":"High","size":13,"edges":31,"triangles":18,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0070395","count":4},{"id":"GO:0042572","count":3},{"id":"GO:0021521","count":3}]},{"hash":"1124639476814797607","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":20,"triangles":7,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071897","count":2},{"id":"GO:0006296","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006284","count":2}]},{"hash":"1705309294564654328","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":46,"triangles":96,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":8},{"id":"GO:0042372","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0006635","count":6},{"id":"GO:0010124","count":6}]},{"hash":"790335213026713963","title":"Histone methylation and nucleosome assembly","description":"The cluster is driven by GO terms for histone methylation and nucleosome assembly, indicating chromatin modification as the core function; the additional terms on IL-6 production, gland development, vasculogenesis, and G0/G1 transition appear peripheral or pleiotropic.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051567","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0097676","count":1},{"id":"GO:0032635","count":1},{"id":"GO:0006334","count":1}]},{"hash":"1278964263373466724","title":"Translation initiation complex formation","description":"The cluster is dominated by GO terms about forming the translation preinitiation complex, translation reinitiation, and regulation of translational initiation, including viral and IRES-dependent initiation. This suggests the proteins are mainly involved in the translation initiation machinery, with some secondary connections to splicing or nutrient response that are less central. ","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0075525","count":3},{"id":"GO:0000380","count":3}]},{"hash":"605750196229992983","title":"Chromatin modification and transcription during development","description":"The top GO terms are centered on chromatin organization and transcription control (nucleosome assembly, DNA-templated transcription, histone deubiquitination, H3-K9 methylation). Developmental terms (forebrain development, osteoblast differentiation) suggest this set acts on gene expression programs during development. Although some terms are less central (e.g., G-quadruplex formation), the core signal is chromatin regulation linked to developmental transcription.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0035522","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0001649","count":2}]},{"hash":"1862945699548100577","title":"Cell Cycle and Development Signaling","description":"The top GO terms emphasize cell division, mitotic cell cycle, embryonic organ development, and multicellular growth, pointing to a proliferative, developmental role. Additional terms for ribosome biogenesis and RNA guanine-N7 methylation reflect necessary protein synthesis and RNA processing in rapidly dividing cells, supporting a growth and development\u2013oriented cluster. Overall, the cluster appears to capture growth-related signaling governing cell proliferation and organismal development.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000747","count":5},{"id":"GO:0036265","count":5},{"id":"GO:0070317","count":4}]},{"hash":"2292150227227792823","title":"Transcriptional Regulation and Cellular Stress Response","description":"The top GO terms center on transcriptional control (DNA-templated transcription; negative regulation of transcription by RNA polymerase II) and stress-related pathways (cellular response to oxidative stress; ER unfolded protein response), suggesting a module that links transcriptional regulation with cellular stress responses; a few metabolic/process terms appear ancillary.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1867287753244853712","title":"Unknown","description":"The top GO terms include innate immune response and defenses against bacteria/protozoa, but also translation, SOS response, chromatin localization to chromatin, and cell division. The data show a mix of immune and housekeeping processes with no clear single functional theme, so a cohesive, specific label isn\u2019t justifiable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0050829","count":1},{"id":"GO:0042832","count":1}]},{"hash":"1227591724150209887","title":"Neuronal signaling and cardiac conduction","description":"The top GO terms point to neuronal electrical activity (membrane hyperpolarization, neuronal action potential, magnesium ion response) and heart-related conduction (atrial repolarization, regulation of heart rate by cardiac conduction, atrial muscle membrane repolarization), with additional neural-structure terms (optic nerve organization, globus pallidus development). This suggests a coherent theme of neural signaling coupled with cardiac electrical function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":1},{"id":"GO:0071435","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0098914","count":1},{"id":"GO:0050966","count":1}]},{"hash":"1940154875999279534","title":"Transmembrane Xenobiotic and Metabolite Transport","description":"Most of the prominent GO terms in this cluster relate to transport across membranes, including xenobiotic transmembrane transport, vitamin transmembrane transport, monoatomic anion transport, long-chain fatty acid import into peroxisomes, teichoic acid transport, and oligopeptide export from mitochondria. This suggests a shared function in membrane-associated transport of diverse molecules. A few terms (e.g., response to cocaine, response to mercury ion) point to broader stress responses but do not override the transport-focused theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0017004","count":3},{"id":"GO:0042891","count":2}]},{"hash":"1266153535586625111","title":"Peroxisomal Protein Import and Targeting","description":"Most of the GO terms cluster around importing and targeting proteins into the peroxisome matrix (docking, translocation, matrix import, and peroxisome targeting) and peroxisome-directed transport along microtubules, which together point to a peroxisomal protein import/trafficking function. A single term about tRNA wobble uridine modification appears less connected to the main theme, suggesting it may be a peripheral annotation. Confidence: High","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":2},{"id":"GO:0016561","count":1},{"id":"GO:1901094","count":1},{"id":"GO:0036250","count":1},{"id":"GO:0016560","count":1}]},{"hash":"1548574535763165284","title":"Innate Immune Signaling and Xenophagy  ","description":"This cluster centers on innate immune sensing and signaling (dsRNA response, LPS signaling, interferon-beta production) and xenophagy regulation, with additional neurochemical-response terms likely reflecting neural-immune interactions; the core theme is immune defense and autophagic clearance.  ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0045359","count":4},{"id":"GO:0043330","count":4},{"id":"GO:1903351","count":4},{"id":"GO:0031663","count":4}]},{"hash":"1839941961070015735","title":"Steroid and lipid metabolism","description":"The top GO terms cluster around lipid biosynthesis and steroid hormone metabolism: mycolic acid biosynthesis, very long-chain fatty acid biosynthetic process, 3-keto-sphinganine metabolic process, retinal/retinol metabolism, C21-steroid hormone metabolic process, estrogen biosynthetic process, and androgen catabolic process. While a couple terms touch on regulation (protein ubiquitination, negative regulation of cardiac muscle cell apoptotic process), the dominant theme is lipid and steroid metabolic pathways, suggesting the proteins in this cluster are linked to lipid/steroid metabolism functions.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010667","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0071768","count":1},{"id":"GO:0042574","count":1},{"id":"GO:0006666","count":1}]},{"hash":"1347637311341415194","title":"Ubiquitin-Proteasome-Mediated Proteostasis and Trafficking","description":"The top GO terms are dominated by ubiquitination and proteasomal degradation (SCF-dependent ubiquitin-proteasomal protein catabolic process; protein polyubiquitination) and by ER-to-Golgi vesicle transport, suggesting a common theme of proteostasis and secretory pathway regulation. Additional terms touch on GTPase regulation, spindle assembly, and development, but these appear less central. Hence, the label reflects the strongest shared function: regulated protein turnover and vesicular trafficking.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000209","count":2}]},{"hash":"2051155932186078039","title":"Developmental gene regulation and cytoskeletal remodeling","description":"This cluster includes GO terms for gene expression control (mRNA processing, transcription, nucleosome assembly, ubiquitin-mediated protein turnover) alongside cytoskeletal dynamics and cell movement (actin bundling, epithelial polarity, migration) and a heart development term, suggesting a developmental program that links transcriptional regulation to cellular remodeling. The absence of network edges indicates a broad functional theme rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0007253","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0090162","count":3}]},{"hash":"412807242941898856","title":"Neurovascular development and insulin signaling","description":"Top GO terms indicate vascular and neural patterning (blood vessel development, brain development, embryonic digit morphogenesis) with ephrin signaling, alongside modulation of insulin signaling (insulin receptor internalization and negative regulation of insulin signaling and glucose import). This points to a cohesive theme of developmental signaling that links vascular/neuronal development with metabolic regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001568","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0038016","count":1},{"id":"GO:0051898","count":1},{"id":"GO:0046627","count":1}]},{"hash":"2092753659444249037","title":"Neural development and synaptic regulation","description":"Most GO terms point to nervous system development and function: myelination in the peripheral nervous system, sympathetic nervous system development, regulation of synaptic transmission (GABAergic), and long-term synaptic potentiation. Regulation of Rho signaling also fits neuronal morphology and connectivity. A few terms concern early embryonic tissues, but the dominant theme is neural development and synaptic regulation, suggesting these proteins cluster around neural differentiation and synaptic plasticity pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1900271","count":2},{"id":"GO:0022011","count":2},{"id":"GO:2001246","count":2}]},{"hash":"1326310514657032964","title":"Actin dynamics and membrane trafficking regulators","description":"The top terms cluster around actin cytoskeleton remodeling (positive regulation of actin filament polymerization, stress fiber and formin-nucleated actin cable assembly) together with membrane trafficking processes (regulation of synaptic vesicle exocytosis, membrane addition during cytokinesis, transmembrane transport, and vacuole fusion), and also touch on organelle contact sites (mitochondrion-ER tethering). This points to a cohesive theme of actin-driven structural changes coordinated with membrane trafficking and organelle interactions, justifying a label centered on actin dynamics with membrane trafficking connections.","confidence":"High","size":12,"edges":16,"triangles":4,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030838","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0051496","count":5},{"id":"GO:0090338","count":5},{"id":"GO:0000060","count":5}]},{"hash":"1016756712066986829","title":"Actin cytoskeleton remodeling and vesicle trafficking","description":"The top terms cluster around actin dynamics (filopodium and stress fiber assembly, Rac signaling, cell spreading) and vesicle transport (ER to Golgi), indicating a cohesive theme of cytoskeletal remodeling coupled with membrane trafficking that underpins adhesion, migration, and morphology. Some terms are obsolete or peripheral, but the core signal points to actin-driven remodeling and trafficking. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0046847","count":6},{"id":"GO:0051496","count":6},{"id":"GO:1900026","count":6},{"id":"GO:0016601","count":6}]},{"hash":"1660885690649189905","title":"Muscle fiber cytoskeleton and mitochondrial localization","description":"The cluster is dominated by skeletal muscle fiber development and actin cytoskeleton-related terms (actin cortical patch assembly, actin filament bundle assembly, actomyosin contractile ring contraction), along with mitochondrion localization and inheritance. This suggests proteins collaborating in muscle cell structure and the positioning/maintenance of mitochondria, despite a few outlier terms (substantia nigra development, heterochromatin formation). ","confidence":"Medium","size":12,"edges":28,"triangles":25,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":6},{"id":"GO:0048741","count":6},{"id":"GO:0001300","count":5},{"id":"GO:0000147","count":4},{"id":"GO:0000916","count":4}]},{"hash":"1839280330808216480","title":"Actin Remodeling and Cell Spreading","description":"The GO terms are dominated by actin cytoskeleton dynamics (actin filament polymerization, podosome/ruffle assembly), cell spreading, mechanical response, and cell polarity, pointing to coordinated remodeling of the actin cytoskeleton and adhesion-driven shape changes rather than a metabolic or signaling-only role.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034260","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0033138","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0071803","count":6}]},{"hash":"1471550012730353295","title":"Calcium-Dependent Signaling and Dephosphorylation","description":"These proteins are linked primarily by calcium-responsive phosphatase activity and signaling: dephosphorylation (protein and tyrosine), detection of calcium, and regulation of the calcineurin-NFAT pathway, plus excitatory postsynaptic potential. These features point to a calcium-dependent signaling module that modulates phosphorylation status and downstream transcriptional or synaptic responses, with some additional but related roles in muscle signaling and chromatin regulation.","confidence":"High","size":12,"edges":32,"triangles":43,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":4},{"id":"GO:0014850","count":4},{"id":"GO:0035335","count":4},{"id":"GO:0060487","count":3},{"id":"GO:1903799","count":3}]},{"hash":"947608545575115822","title":"Golgi\u2013ER\u2013Plasma Membrane Vesicle Trafficking","description":"The top GO terms cluster around intracellular transport via vesicles: ER-to-Golgi, Golgi-to-plasma membrane, and retrograde Golgi-ER transport, plus endosome-to-Golgi and protein localization to the plasma membrane. This suggests a coherent theme of proteins involved in trafficking between key secretory compartments and delivery to the cell surface. Some items like ribosomal subunit export and Cvt pathway are related to vesicle targeting or cellular transport; the other terms support a central function in vesicular trafficking rather than independent processes. Therefore the label reflects the shared function.","confidence":"High","size":12,"edges":22,"triangles":8,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0090316","count":5},{"id":"GO:0043001","count":5},{"id":"GO:0006890","count":5},{"id":"GO:0034498","count":4}]},{"hash":"1158473498819827869","title":"Development and cell cycle regulation","description":"The Top Terms include several developmental processes (nervous system development, dendrite morphogenesis, cotyledon and liver morphogenesis) alongside cell cycle-related terms (G1/S transition, mitotic cell cycle, meiotic sister chromatid segregation). This mix suggests a cluster associated with developmental processes and regulation of cell division rather than a single specific function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050775","count":2},{"id":"GO:1900087","count":1},{"id":"GO:0048825","count":1},{"id":"GO:0072576","count":1},{"id":"GO:0035019","count":1}]},{"hash":"115897824778195187","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"The cluster is dominated by processes tied to ubiquitin-mediated protein degradation, including SCF- and APC/C-dependent proteolysis, proteasomal degradation, and mitotic cell cycle regulation (anaphase-promoting complex-dependent catabolic processes). This points to a coherent function: controlled protein turnover governing cell cycle progression and chromatin dynamics, with histone ubiquitination contributing to chromatin state. ","confidence":"High","size":12,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000083","count":2},{"id":"GO:0070535","count":2}]},{"hash":"322948903138339136","title":"ECM Remodeling and Tissue Morphogenesis","description":"Most top GO terms describe degradation/remodeling of extracellular matrix and basement membranes (collagen catabolic process, basement membrane disassembly), along with bone remodeling and organ morphogenesis (bone resorption, intramembranous ossification, epithelial tube branching in lung morphogenesis). Additional terms point to developmental tissue remodeling contexts (decidualization, neural precursor proliferation). Together, they suggest a theme of extracellular matrix\u2013driven remodeling during development and morphogenesis.","confidence":"Medium","size":12,"edges":42,"triangles":72,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":5},{"id":"GO:0045453","count":5},{"id":"GO:0001957","count":5},{"id":"GO:0030574","count":5},{"id":"GO:0046697","count":5}]},{"hash":"1242593946051853219","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072553","count":1},{"id":"GO:0006414","count":1},{"id":"GO:0032232","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0015971","count":1}]},{"hash":"733414386264538510","title":"Oocyte meiosis spindle assembly and maturation","description":"The terms cluster around cytoskeletal organization (actin filament bundle assembly; microtubule polymerization) and spindle assembly in female meiosis I, together with oocyte maturation, suggesting a role in meiotic spindle dynamics during oocyte development.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0006516","count":1},{"id":"GO:0001556","count":1},{"id":"GO:0046785","count":1}]},{"hash":"263848477813479620","title":"Actin Cytoskeleton Remodeling and Pseudopodium Formation","description":"This cluster is dominated by GO terms related to actin filament organization, actin polymerization, and Arp2/3-mediated nucleation, plus positive regulation of pseudopodium assembly and cell polarity. These together point to a shared function in cytoskeletal remodeling and protrusion formation, i.e., pseudopodium dynamics and cell shape changes.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045315","count":1},{"id":"GO:2001271","count":1},{"id":"GO:0031274","count":1},{"id":"GO:0030838","count":1},{"id":"GO:1990872","count":1}]},{"hash":"569438858202293776","title":"ECM Remodeling and Cell Migration","description":"This cluster centers on processes involving extracellular matrix remodeling and intercellular movement, including metallopeptidase regulation, hyaluronan metabolism, cell migration, extravasation, and cell\u2013cell adhesion, all of which reflect tissue remodeling and dynamic cell interactions. Developmental themes like chondrocyte morphogenesis and a neural context (dendrite regeneration) can align with ECM signaling, while an outlier GO term (chlorophyll biosynthetic process) likely reflects annotation noise. Overall, the dominant shared function appears to be ECM remodeling and related cell migration/adhesion.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1905050","count":2},{"id":"GO:0003429","count":2},{"id":"GO:0045123","count":2},{"id":"GO:0031104","count":2},{"id":"GO:0070208","count":2}]},{"hash":"909309394524346865","title":"Actin-driven cytoskeleton remodeling and mitochondrial inheritance","description":"This cluster is dominated by GO terms for actin cytoskeleton dynamics (cortical patch assembly, actomyosin contractile ring contraction, actin filament bundle assembly) and mitochondrial localization/inheritance, suggesting a coherent theme of actin-dependent cytoskeleton remodeling coordinated with organelle positioning and inheritance. Other terms (calcium response, muscle adaptation, chromatin-related processes) appear as supporting or incidental signals but do not redefine the main theme. ","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":4},{"id":"GO:0000916","count":4},{"id":"GO:0051654","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0000001","count":4}]},{"hash":"2076609812692076526","title":"Amino Acid Catabolism and Central Carbon Metabolism","description":"Top terms cluster around degradation of several amino acids (lysine, alanine, glutamate, kynurenine) and oxaloacetate metabolism, with some signaling terms (insulin response, Notch pathway) appearing peripherally. This suggests a cohesive theme of amino acid catabolism feeding into central carbon metabolism, rather than a single discrete signaling pathway. ","confidence":"Medium","size":12,"edges":49,"triangles":96,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":5},{"id":"GO:0032869","count":5},{"id":"GO:0033585","count":4},{"id":"GO:0019518","count":4},{"id":"GO:0006107","count":4}]},{"hash":"1468999375758243196","title":"Cardiac Cytoskeleton Remodeling and Electrical Coupling","description":"The cluster\u2019s key GO terms center on actin cytoskeleton dynamics (branching and bundle assembly), cellular responses to mechanical cues, and cardiac-specific regulation of electrical connectivity (SA node action potential, electrical coupling). While other terms touch on tissue growth and ubiquitination, the convergence on actin remodeling and heart conduction suggests a cardiac mechanotransduction/conduction theme, making this label representative. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0090135","count":4}]},{"hash":"1937766150156056090","title":"Cardiac electrical signaling and cytoskeletal dynamics","description":"The top GO terms point to heart-related electrical activity, with positive regulation of cell communication by electrical coupling and regulation of SA node cell action potential, suggesting a focus on cardiac electrical signaling. Actin filament bundle assembly indicates cytoskeletal remodeling, which complements cardiac function. Other terms (Wnt signaling, intracellular signal transduction) reflect broader signaling contexts but do not outweigh the cardiac/cytoskeletal theme. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010650","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0098907","count":3}]},{"hash":"1410558796686743171","title":"Diverse lipid and pigment biosynthesis","description":"This cluster centers on biosynthetic pathways for a wide range of metabolites: antibiotic biosynthesis, lipopolysaccharide and mycolic acid production, various lipid-related sphingolipid pathways, polyhydroxybutyrate biosynthesis, and pigment/retinoid biosynthesis (anthocyanin, retinal, retinol). The common theme is production of diverse lipids and pigment/secondary metabolites across different organisms; a regulatory transcription term appears peripheral rather than core. ","confidence":"Medium","size":12,"edges":52,"triangles":118,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0042572","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0042619","count":4}]},{"hash":"1481508322143337771","title":"Mitochondrial Transport and Dynamics","description":"Top GO terms cluster around mitochondrial transport and membrane remodeling: multiple transmembrane transport processes (ADP, phosphate, heme, glycine, CoA, ornithine), the malate-aspartate shuttle, mitochondrial membrane fission, and apoptotic mitochondrial changes. This suggests a cohesive function related to mitochondrial metabolism and membrane dynamics, rather than a single metabolite pathway.","confidence":"High","size":12,"edges":18,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":6},{"id":"GO:0090149","count":4},{"id":"GO:0035349","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0000066","count":3}]},{"hash":"1015106445291309588","title":"Mitochondrial transport and metabolism","description":"The top GO terms cluster around transmembrane transport of various metabolites across mitochondria (ADP, phosphate, CoA, ornithine, heme) and mitochondrial-specific processes like the malate-aspartate shuttle, plus signals for mitochondrial genome maintenance and apoptotic changes. This pattern suggests a group of proteins involved in mitochondrial membrane transport and related metabolic functions rather than a single, unified pathway. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":2},{"id":"GO:0006308","count":2},{"id":"GO:0035349","count":2},{"id":"GO:0008637","count":2},{"id":"GO:0000066","count":2}]},{"hash":"203398738780125458","title":"Inter-organelle membrane transport and fusion","description":"The top GO terms point to vesicle fusion events between organelles (ER and Golgi) and a set of transmembrane transport processes across mitochondrial and other organelle membranes (ADP, ornithine, heme, malate-aspartate shuttle), with a note on mitochondrial changes during apoptosis. This combination suggests a functional cluster centered on inter-organelle membrane trafficking and mitochondrial membrane transport, rather than a single metabolic pathway.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048279","count":1},{"id":"GO:0016320","count":1},{"id":"GO:0048280","count":1},{"id":"GO:0035349","count":1},{"id":"GO:0008637","count":1}]},{"hash":"1317467546335269418","title":"Prostaglandin and epoxygenase lipid signaling","description":"The cluster is enriched for lipid signaling pathways derived from arachidonic acid, notably prostaglandin biosynthesis and the epoxygenase P450 pathway, suggesting a core theme of prostaglandin/epoxygenase\u2013mediated signaling. Redox-related terms (oxidant detoxification, redox homeostasis) and triglyceride metabolism further support a lipid-metabolism plus redox-regulation context, rather than a single developmental program. Confidence: Medium","confidence":"","size":12,"edges":9,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0019373","count":3},{"id":"GO:2000255","count":2}]},{"hash":"1028751256301577443","title":"Multilineage differentiation and neural development","description":"This cluster centers on differentiation and development across multiple lineages (erythrocyte, eosinophil, macrophage) and neural lineages (ventral spinal cord interneurons, forebrain neuron commitment), with additional organogenesis signals (parathyroid gland development, cardiac muscle regeneration) and neuroendocrine activity (norepinephrine biosynthesis) and TGF-beta regulation. The unifying theme is cell fate specification and developmental processes spanning immune, neural, and organ systems, rather than a single pathway. ","confidence":"Medium","size":12,"edges":18,"triangles":10,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":4},{"id":"GO:0060017","count":3},{"id":"GO:0061026","count":3},{"id":"GO:0032911","count":3},{"id":"GO:0045650","count":3}]},{"hash":"2240813514059270565","title":"Amino acid, nucleotide, and lipid biosynthesis","description":"The cluster centers on multiple biosynthetic processes\u2014DNA biosynthesis, pantothenate and cholesterol biosynthesis, proline and alanine metabolism\u2014along with translation and the pentose-phosphate pathway, suggesting a broad biosynthetic/metabolic program for macromolecule production. Copper import and the redox term appear less central but may reflect general metabolic context.","confidence":"Medium","size":12,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015677","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1132738239737616727","title":"Neural development and eye morphogenesis","description":"The terms include axonogenesis and axonal fasciculation, plus camera-type eye morphogenesis, pointing to neural wiring and sensory organ development; other terms touch on neural function and behavior, suggesting an overarching neural-development and sensory-moc morphogenesis theme, with some weaker, peripheral terms.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:2000303","count":2},{"id":"GO:0021952","count":2},{"id":"GO:0031666","count":2},{"id":"GO:0071625","count":2}]},{"hash":"1494224320363412348","title":"Signaling and Developmental Processes","description":"The terms point to growth-factor\u2013mediated signaling (PI3K/AKT and IGF receptor pathways) and regulation of stress pathways (JNK) plus developmental roles (midbrain morphogenesis, hematopoiesis, B cell maturation). A few entries touch on membrane dynamics and metabolism, suggesting the cluster centers on signaling networks that influence development and cell fate.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":2},{"id":"GO:0043491","count":1},{"id":"GO:0031641","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0048009","count":1}]},{"hash":"1274057433404876749","title":"Bacterial sporulation and ectoine metabolism","description":"This cluster is driven by GO terms related to sporulation (formation of spores) and ectoine biosynthesis/catabolism, with additional metabolic processes like valine catabolism and fatty acid oxidation, which together point to prokaryotic, stress-adaptive metabolism. The co-occurrence of sporulation and osmoprotectant (ectoine) pathways suggests a Bacillus-like or halotolerant bacterial context rather than a single eukaryotic pathway, justifying a label centered on bacterial sporulation and metabolic adaptation.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006351","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0006574","count":2},{"id":"GO:0045329","count":2}]},{"hash":"818071041507123203","title":"Bone remodeling and calcium signaling","description":"The terms point to osteoclast function and bone-related calcium regulation\u2014osteoclast fusion, actin cytoskeleton remodeling (actin filament binding/bundle assembly), and positive regulation of calcium transport align with bone resorption and calcium homeostasis. Parathyroid gland development and TGF-beta responsiveness further connect to systemic calcium regulation and bone remodeling signaling. Some outliers (like T cell proliferation) may reflect broader signaling cross-talk, but the core theme centers on bone remodeling and calcium signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904531","count":1},{"id":"GO:0072675","count":1},{"id":"GO:0060017","count":1},{"id":"GO:0000147","count":1},{"id":"GO:0045806","count":1}]},{"hash":"252930400396662604","title":"Broad Signaling and Cytoskeletal Dynamics","description":"The top GO terms point to signaling pathways (intracellular signal transduction, Wnt signaling, regulation of electrical coupling) and cytoskeletal organization (actin filament bundle assembly), suggesting a theme around how signals regulate cytoskeletal dynamics and cell communication. Some terms related to immune/apoptotic processes and pain sensing appear as peripheral associations rather than core features, and the zero edges imply a loosely connected, multi-pathway cluster. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0010650","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0016055","count":2}]},{"hash":"1479694625726635301","title":"Unknown","description":"The top GO terms cover mitochondrial targeting, actin organization, metabolism, signaling, and immune/plant hormone pathways, with no clear unifying function or protein interaction, as indicated by zero edges/triangles. This suggests the cluster lacks a coherent biological theme.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0042593","count":2},{"id":"GO:0018298","count":2}]},{"hash":"963865044199725594","title":"Developmental signaling and cytoskeletal remodeling","description":"This cluster combines developmental processes (Wnt signaling, neuroblast proliferation, epithelial tube branching) with actin-related remodeling (actin filament bundle assembly), suggesting a cohesive theme of developmental signaling linked to cytoskeletal dynamics. While some terms are broader housekeeping processes, the core pattern points to development-associated signaling and structural reorganization.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0060441","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0007405","count":1},{"id":"GO:0042219","count":1}]},{"hash":"187161690462375763","title":"Immune-vascular-endocrine signaling regulation","description":"The proteins touch multiple GO terms across immune differentiation (T and NK cells), vascular/endothelial functions (endothelial barrier), endocrine activity (insulin secretion), and general signaling pathways (Rho signaling, cGMP response, adrenergic signaling). This suggests a shared theme of regulating signal transduction across immune, vascular, and endocrine contexts, with some additional developmental context. Given the heterogeneity but common regulatory signaling thread, this label fits well, with moderate confidence.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0010667","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0033089","count":1},{"id":"GO:0030073","count":1}]},{"hash":"491286700549059971","title":"B cell development and cytokine signaling","description":"This cluster is dominated by terms tied to B cell maturation and immune signaling (B cell affinity maturation, hematopoiesis, IL-7 and IL-4 related responses) and PI3K/AKT/JNK pathway regulation, with prostaglandin signaling as a secondary immune-related cue. While there are a couple of broader or metabolic terms, the strongest cohesive theme is immune cell development and cytokine-mediated signaling, particularly along the B cell lineage.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":2},{"id":"GO:0046329","count":2},{"id":"GO:0030097","count":2},{"id":"GO:0002344","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1422252279299582862","title":"Rab/Rap-mediated vesicle trafficking and endocytosis","description":"The top GO terms cluster around Rab/Rap GTPase signaling driving endocytosis and vesicle dynamics, including Rab/Rap-mediated signal transduction, vacuole fusion regulation, and membrane events during cytokinesis, plus ER\u2013mitochondria tethering. This suggests a coherent theme of membrane trafficking and organelle-contact regulation, with cell-division\u2013related membrane remodeling reinforcing the connection. Some terms like neuromuscular balance reflect broader cellular transport roles but do not contradict the central trafficking-focused theme.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006897","count":7},{"id":"GO:0032486","count":7},{"id":"GO:0032889","count":6},{"id":"GO:0007107","count":6},{"id":"GO:0090324","count":6}]},{"hash":"260903361131151503","title":"Ribosome biogenesis and RNA processing","description":"The cluster shows strong signals for ribosome-related processes (small-subunit processome assembly and translation) along with RNA processing events (spliceosome-mediated splicing and polyadenylation). These together suggest a core theme around RNA metabolism and ribosome biogenesis, despite a few more distal terms. ","confidence":"Medium","size":11,"edges":52,"triangles":139,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0015986","count":1},{"id":"GO:0099132","count":1},{"id":"GO:0034462","count":1}]},{"hash":"520241622159878614","title":"Host Interaction and Calcium\u2013NFAT Signaling","description":"Top terms cluster around tyrosine dephosphorylation and regulation of calcineurin-NFAT signaling, with calcium detection and related signaling processes, plus a term related to host interaction. This suggests a cohesive theme of proteins that modulate host-associated signaling via calcium/NFAT pathways, despite some broader terms in chromatin and miRNA processing. Therefore, the label emphasizes the core calcium/NFAT signaling axis in the context of host interaction.","confidence":"Medium","size":11,"edges":44,"triangles":104,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":5},{"id":"GO:0044119","count":4},{"id":"GO:0060487","count":3},{"id":"GO:1903799","count":3},{"id":"GO:0051343","count":3}]},{"hash":"1544672919233689914","title":"Myoblast Fusion and Muscle Development","description":"Top GO terms point to muscle formation and differentiation signals (myoblast fusion; regulation of cell-matrix adhesion; cell migration; regulation of developmental growth), with supporting hints from cell-cycle exit during differentiation (mitotic cell cycle, DNA damage checkpoint). The convergence on myogenesis and adhesion-related processes best explains the cluster, despite some generic cell-cycle annotations.","confidence":"High","size":11,"edges":44,"triangles":85,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0051436","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0071276","count":6}]},{"hash":"1592141468052413097","title":"Neuronal development and morphogenesis","description":"The top GO terms are dominated by brain development, dendrite morphogenesis, and regulation of axonogenesis, with supporting signals for cytoskeletal remodeling and exocytosis, suggesting proteins involved in neuronal differentiation and neurite signaling. A mitotic cell cycle term appears but is likely related to progenitor dynamics rather than the primary function of the cluster. Overall, the set points to neuronal development and morphogenesis as the shared theme.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0000186","count":4},{"id":"GO:0048813","count":4},{"id":"GO:0051893","count":4}]},{"hash":"1115654730740758358","title":"Dopaminergic neuron development and neural differentiation","description":"This cluster is enriched for neural developmental terms, especially midbrain dopaminergic neuron differentiation, hippocampus development, and substantia nigra development, suggesting a core role in neural differentiation with a dopaminergic focus. Additional terms related to cell cycle, apoptosis regulation, cytoskeleton/pseudopodium assembly, and nuclear import support broader developmental and cellular regulation contexts, but the dominant theme centers on neuronal development and dopaminergic neuron specification.","confidence":"Medium","size":11,"edges":7,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":4},{"id":"GO:0032467","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0031274","count":3}]},{"hash":"781063361963947518","title":"Actin-Driven Cell Adhesion and Motility","description":"Based on the top GO terms, this cluster centers on actin cytoskeleton remodeling and cell movement: positive regulation of actin filament polymerization, filopodium and podosome/ruffle assembly, cell spreading, and maintenance of cell polarity. These processes enable dynamic changes in cell shape and adhesion, consistent with an actin-driven motility program. The bone ossification and mitotic cycle terms appear only modestly, so the overall theme remains cytoskeletal dynamics and movement.","confidence":"High","size":11,"edges":39,"triangles":66,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0030838","count":3}]},{"hash":"1444854927799378590","title":"Actin-driven signaling and morphogenesis","description":"This cluster is enriched for actin cytoskeleton dynamics (pseudopodium assembly, dendritic spine morphogenesis) and multiple signaling pathways (Wnt, ephrin receptor, T cell receptor). The presence of development-related terms and cell-cycle processes suggests a broad role in cytoskeletal remodeling linked to signaling and morphogenesis rather than a single pathway.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031274","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0031532","count":3}]},{"hash":"874577210590251594","title":"Neural development and cell cycle regulation","description":"The cluster shows strong signals for neural development (cerebral cortex and hippocampus development, axonogenesis regulation, visual perception) while also featuring mitotic cell cycle and apoptosis-related terms (apoptotic process, JNK cascade, protein stability). This pattern suggests proteins involved in neural development with concurrent regulation of cell proliferation and survival.","confidence":"Medium","size":11,"edges":11,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0050771","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0021987","count":6}]},{"hash":"1188487036399143448","title":"Mitotic Cell Division and Cytoskeletal Dynamics","description":"The cluster is dominated by mitosis- and cell division-related terms (cell division, mitotic cell cycle, mitotic spindle assembly, cell population proliferation) with supporting terms about cytoskeletal reorganization, cell polarity, and organelle distribution, all of which suggest a coordinated role in mitosis and cytoskeletal dynamics plus signaling regulation.","confidence":"High","size":11,"edges":31,"triangles":22,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0008283","count":6},{"id":"GO:0048312","count":6},{"id":"GO:0031532","count":6}]},{"hash":"294672934454554888","title":"Nitric oxide\u2013redox signaling and inflammation","description":"This cluster\u2019s GO terms center on nitric oxide biosynthesis regulation, ROS management (removal of superoxide), and redox-modified processes like peptidyl-cysteine S-nitrosylation, together with IL-6 production and vascular remodeling signals. Additional terms related to xenobiotic response, cysteine biosynthesis, and fatty acid oxidation reflect metabolic support for redox balance and inflammatory signaling. The overall theme is redox-regulated signaling linking NO biology to inflammatory and vascular responses, with cysteine metabolism playing a supporting role.","confidence":"High","size":11,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":2},{"id":"GO:0042493","count":1},{"id":"GO:0019344","count":1},{"id":"GO:0018119","count":1},{"id":"GO:0019395","count":1}]},{"hash":"2180614443603680294","title":"Nutrient and ion transmembrane transporters","description":"The Top Terms are dominated by transmembrane transport GO terms covering a range of substrates (nitrate/nitrite, sodium, phosphate, sugars like galactose and fucose, sialic acid) and related transporter activities, indicating a cluster of membrane transport proteins with broad substrate specificity. This label captures the common theme of transmembrane transport across diverse nutrients and ions.","confidence":"High","size":11,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0015739","count":3}]},{"hash":"667510470598922534","title":"DNA Damage Response and Transcription Regulation","description":"The cluster\u2019s top GO terms cluster around genome maintenance and transcription control, including nonsense-mediated mRNA decay, SOS response, RNA polymerase I/II transcription termination and transcription start-site regulation, and DNA damage tolerance\u2014plus related chromatin regulation terms\u2014pointing to coordinated DNA damage response and transcriptional regulation roles.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":6},{"id":"GO:0009432","count":5},{"id":"GO:0006268","count":5},{"id":"GO:0006363","count":4},{"id":"GO:0006301","count":4}]},{"hash":"2059370858417604477","title":"Skeletal muscle development and gene expression control","description":"The top GO terms lean strongly toward skeletal muscle biology (skeletal muscle differentiation and contraction), suggesting a muscle-focused cluster. The presence of transcription, splicing (generation of catalytic spliceosome), mitochondrial translation, and translational fidelity indicates a broader gene-expression and protein-synthesis regulatory context that underpins muscle development and function. Some non-muscle terms appear, likely reflecting shared regulatory machinery rather than a distinct non-muscle function. Overall, the cluster seems centered on muscle development with underlying gene expression control mechanisms.","confidence":"Medium","size":11,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000349","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0002244","count":2}]},{"hash":"2052199613147970446","title":"Bacterial cell envelope biosynthesis and antibiotic response","description":"The top terms center on biosynthesis of surface components and envelopes (lipopolysaccharide, lipid A, slime layer polysaccharides, UDP-N-acetylglucosamine) and cell morphogenesis, with additional signals for antibiotic response and regulation of GTPase activity, suggesting a cohesive cluster of bacterial envelope assembly, surface layer formation, and related stress responses.","confidence":"Medium","size":11,"edges":33,"triangles":38,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0034260","count":2}]},{"hash":"622554197141604090","title":"Translation Initiation and mRNA Regulation","description":"This cluster centers on post-transcriptional control, especially translation initiation and reinitiation, IRES-dependent viral translation, preinitiation complex formation, and mRNA stability/splicing regulation. The prominence of stress-responsive mRNA regulation and ncRNA-mediated silencing ties these processes together as a cohesive module of RNA-level control, including viral translation aspects.","confidence":"High","size":11,"edges":19,"triangles":11,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0075525","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0075522","count":7},{"id":"GO:0048026","count":7}]},{"hash":"1573752691486463839","title":"EGF-driven cell fate and regeneration","description":"The cluster\u2019s top GO terms cluster around growth factor signaling (EGF stimulus), cell fate decisions (positive regulation of cellular senescence), and tissue regeneration (animal organ regeneration), plus related survival and oxidative processes (negative regulation of extrinsic apoptotic signaling, regulation of superoxide generation). This suggests a theme of cells responding to EGF and coordinating fate decisions and regenerative responses. Some terms (like olfactory perception and certain lipid metabolism terms) seem less central and may reflect broader or less specific annotations, but the dominant signal links growth factor signaling to cell fate and regeneration. ","confidence":"Medium","size":11,"edges":52,"triangles":141,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2000774","count":8},{"id":"GO:0060316","count":8},{"id":"GO:0071364","count":8},{"id":"GO:2000255","count":8},{"id":"GO:0031100","count":8}]},{"hash":"1501246911953924011","title":"PNS Myelination and NFAT-Calcium Signaling","description":"The cluster centers on peripheral nervous system myelination, calcium sensing, and regulation of the calcineurin-NFAT signaling cascade (including both positive and negative regulation). The presence of excitatory postsynaptic potential and calcium detection reinforces a neuronal signaling theme, while other terms (e.g., lung epithelial differentiation, miRNA processing regulation) may reflect broader regulatory connections rather than core functions.","confidence":"High","size":11,"edges":8,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0060487","count":4},{"id":"GO:1903799","count":4},{"id":"GO:0051343","count":4}]},{"hash":"114926161428528752","title":"Mitotic Regulation and Development","description":"The top terms point to mitosis-related processes (kinetochore localization, mitotic cell cycle, CDK activity regulation) with additional signals of transcriptional control during development (DNA-templated transcription, development terms). The presence of stress and immune-related terms (cadmium response, ER-stress\u2013induced apoptosis, defense against Gram-positive bacteria) suggests broader cellular response roles, but the strongest signal is mitotic regulation linked to developmental gene expression. ","confidence":"Medium","size":11,"edges":17,"triangles":11,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":6},{"id":"GO:0045736","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":5}]},{"hash":"223086663897750","title":"Epigenetic Regulation of Development","description":"This cluster combines histone modification activities (H3K36/K4 demethylation, histone deacetylase regulation) with developmental differentiation signals (mesodermal/myoblast differentiation, uterus/mammary morphogenesis), suggesting epigenetic control of development and morphogenesis.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0061428","count":2},{"id":"GO:0048333","count":2},{"id":"GO:0070544","count":2},{"id":"GO:0034720","count":2}]},{"hash":"1720394804929567899","title":"ER glycosylation and calcium handling","description":"The top GO terms point to endoplasmic reticulum\u2013associated processes: protein N-linked glycosylation, targeting to the ER, GDP-mannose biosynthesis (a donor for N-glycans), and calcium transport/regulation between cytosol and the ER. These converge on ER protein maturation and calcium homeostasis, with related muscle-related terms (T-tubule organization, muscle relaxation) likely reflecting ER/SR involvement in muscle cells. A few terms appear less related (e.g., lipopolysaccharide biosynthesis), possibly noise, but the dominant theme is ER-driven protein processing and Ca2+ handling. ","confidence":"Medium","size":11,"edges":37,"triangles":51,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":2},{"id":"GO:0009103","count":2},{"id":"GO:1903515","count":1},{"id":"GO:0032470","count":1},{"id":"GO:0090171","count":1}]},{"hash":"2093670949241450706","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":16,"triangles":6,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0000464","count":3},{"id":"GO:0034475","count":3},{"id":"GO:0048568","count":3},{"id":"GO:0000472","count":3}]},{"hash":"1262861134402245955","title":"Membrane Transport and GPCR Trafficking","description":"The cluster shows several membrane-related functions: transmembrane transport of glucose and amino acids, cystine transport, and GPCR internalization, along with related signaling regulation. Some terms (lens development, grooming behavior) are peripheral or noisy, so the core theme is a loose grouping of membrane transport and receptor-trafficking components. ","confidence":"Low","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":1},{"id":"GO:0080144","count":1},{"id":"GO:0015811","count":1},{"id":"GO:0006488","count":1},{"id":"GO:0007625","count":1}]},{"hash":"822826934756983578","title":"Mitochondrial dynamics during the cell cycle","description":"Top terms point to mitochondrial inheritance and fission alongside cell-cycle processes, suggesting these proteins coordinate mitochondrial partitioning and membrane remodeling during division; vesicle trafficking terms may reflect broader membrane dynamics in this context.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":4},{"id":"GO:0034198","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0090149","count":3}]},{"hash":"199655012020139900","title":"Neuronal synaptic signaling and plasticity factors","description":"This cluster's top GO terms center on neural communication\u2014synaptic transmission (glutamatergic), long-term potentiation, and regulation of synaptic plasticity\u2014indicating involvement in neuronal signaling and activity-dependent plasticity. Some terms (myoblast fusion, ABA-activated signaling) may reflect annotation noise, but the core signal is neural synaptic function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007520","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0031914","count":3}]},{"hash":"1612001943976690255","title":"Neural development and organogenesis regulation","description":"The terms cluster around developmental control, especially neural differentiation and sensory/organ formation (hypothalamus differentiation, axon extension, oligodendrocyte and amacrine cell differentiation, inner ear development), plus Wnt signaling regulation and organ induction, suggesting a group of proteins that regulate developmental decision-making across neural and organogenesis contexts.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0021979","count":1},{"id":"GO:0030516","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0008585","count":1}]},{"hash":"1701824300220796250","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010099","count":1},{"id":"GO:0080022","count":1},{"id":"GO:0055121","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0000492","count":1}]},{"hash":"67877135187534618","title":"Glycosylation and glycan biosynthesis","description":"The top GO terms are dominated by glycosylation-related processes (protein O-linked glycosylation via mannose, N-glycan fucosylation, Lewis a epitope biosynthesis), suggesting a cluster centered on glycan processing and related biosynthetic steps. Other terms touch on signaling and immune cell movement, which could reflect ancillary roles, but glycosylation is the clearest shared theme. Some cannabinoid terms appear but are likely incidental. Confidence is Medium.","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1901696","count":1},{"id":"GO:1901697","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0035269","count":1}]},{"hash":"188940984932043672","title":"Unknown","description":"The top GO terms span prostaglandin biosynthesis, stress responses, muscle differentiation, cell cycle regulation, ion responses, development, and adhesion with no single unifying function, suggesting a heterogeneous cluster without a coherent shared biology.","confidence":"","size":11,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0035902","count":6},{"id":"GO:2001037","count":6},{"id":"GO:1900087","count":6},{"id":"GO:0010164","count":6}]},{"hash":"818886113554779937","title":"Membrane Transport of Ions, Metabolites, and Xenobiotics","description":"The cluster's GO terms cluster around transport activities across membranes for a variety of substrates (molybdate and heme transport; xenobiotic transmembrane transport; teichoic acid transport; long-chain fatty acid import into peroxisomes; oligopeptide export from mitochondria), with some ancillary terms related to amino acid biosynthesis and mercury ion response. This suggests a cohesive theme of diverse membrane transport processes rather than a single metabolic pathway. Confidence: Medium","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009073","count":2},{"id":"GO:0099133","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0046689","count":2},{"id":"GO:0015910","count":2}]},{"hash":"1108275759350395231","title":"Proteasome-Mediated Meiosis and Spindle Assembly","description":"This cluster is driven by ubiquitin-dependent protein catabolic processes and meiotic/spindle-associated activities (SCF-dependent proteasomal degradation, microtubule polymerization, spindle assembly in female meiosis I, and oocyte maturation), pointing to proteostasis control of meiosis. Neural development terms appear less central, suggesting they are incidental in this cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0042787","count":6},{"id":"GO:1903378","count":6},{"id":"GO:0006516","count":5},{"id":"GO:0070544","count":5}]},{"hash":"279027540616004440","title":"Endothelial Signaling and Vascular Remodeling Regulation","description":"Based on the GO terms, the cluster is dominated by regulatory processes affecting blood vessels and their signaling networks, including vascular permeability, remodeling, IGF receptor signaling, calcineurin-NFAT signaling, and actin cytoskeleton organization via small GTPases. Immune-related terms (neutrophil degranulation, respiratory burst) and the imaginal disc morphogenesis term appear ancillary, but the core pattern points to endothelial signaling that modulates vascular integrity and remodeling. Confidence: High","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007480","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0002692","count":2},{"id":"GO:0060313","count":2}]},{"hash":"1104707773110960836","title":"Pancreatic beta-cell development and ciliogenesis","description":"The top GO terms cluster around endocrine pancreas development, pancreatic cell differentiation and maturation, which points to pancreatic beta-cell development. The presence of cilium assembly and cilium-dependent cell motility terms suggests a ciliogenesis or ciliary signaling component that can influence developmental pathways. A few terms refer to broader tissue development (cerebellar cortex morphogenesis, cardiac muscle cell proliferation), which fits a general developmental context but does not negate the pancreatic emphasis. Overall, this cluster seems centered on pancreatic endocrine cell development with a ciliogenesis link.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":2},{"id":"GO:0021696","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0060285","count":2},{"id":"GO:0003309","count":2}]},{"hash":"669243473889495527","title":"Drosophila oogenesis and maternal mRNA localization","description":"The top GO terms point to oocyte development and localization processes (oskar mRNA localization, pole plasm, ovarian axis determination, oocyte maturation) with translation activity and germline-related regulation, all characteristic of maternal control during Drosophila oogenesis and early embryogenesis. While some terms are general, the coherent set around oocyte development and maternal mRNA localization supports a focused, biology-specific label.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0060269","count":1},{"id":"GO:0007317","count":1},{"id":"GO:0030720","count":1},{"id":"GO:0008070","count":1}]},{"hash":"1830762715532242212","title":"Mitotic membrane trafficking and organelle tethering","description":"The cluster\u2019s frequent terms emphasize membrane dynamics during cell division (cytokinesis membrane addition, mitotic cell cycle) and vesicle trafficking/ORG contact (Rab signaling, mitochondrion-ER tethering, vacuole fusion). A few terms touch neural processes, but overall the dominant theme links membrane trafficking and organelle contacts to mitosis.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032889","count":9},{"id":"GO:0007107","count":9},{"id":"GO:0090324","count":9},{"id":"GO:1990456","count":9},{"id":"GO:0000278","count":9}]},{"hash":"318506647744185905","title":"Actin-regulated vesicle trafficking and mechanotransduction","description":"This cluster centers on actin cytoskeleton remodeling linked to vesicle trafficking/exocytosis\u2014evidenced by terms on vesicle docking/exocytosis, vacuole fusion, and regulation of synaptic vesicle exocytosis\u2014paired with multiple actin dynamics processes (polymerization, stress fibers, formin-nucleated cables) and a cellular response to mechanical stimulus. Together, these terms suggest a cohesive theme where actin remodeling drives vesicle trafficking and responds to mechanical cues.","confidence":"High","size":10,"edges":36,"triangles":77,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":5},{"id":"GO:0010796","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0006904","count":4},{"id":"GO:0032889","count":4}]},{"hash":"1800122524796022974","title":"Neurite morphogenesis and neuronal development","description":"This cluster is dominated by GO terms for dendrite morphogenesis, nervous system development, axonogenesis regulation, and JNK signaling, which together point to neurite outgrowth and neuronal differentiation. Cytoskeletal dynamics via focal adhesion regulation and actin reorganization further support neurite morphology, while one immune signaling term (T cell receptor signaling) appears incidental. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0031532","count":6},{"id":"GO:0008283","count":5},{"id":"GO:0048813","count":5},{"id":"GO:0051893","count":5}]},{"hash":"240573752458628499","title":"Spliceosome-Driven RNA Splicing and mRNA Regulation","description":"This cluster is dominated by GO terms related to spliceosome-mediated splicing and mRNA processing (positive regulation of mRNA splicing via spliceosome, mRNA cis splicing via spliceosome, alternative mRNA splicing via spliceosome, small-subunit processome assembly) and mRNA stability regulation, indicating a module of proteins involved in RNA splicing and post-transcriptional control. A few terms about regulatory ncRNA-mediated gene silencing and stress-related mRNA stability support a broader RNA-regulatory role, but the core theme centers on spliceosome-driven RNA processing.","confidence":"High","size":10,"edges":23,"triangles":26,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0090394","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0075525","count":3}]},{"hash":"1946075651327690521","title":"Cytoskeleton remodeling and cell adhesion","description":"The GO terms cluster around actin-based structures and adhesion dynamics, including podosome and focal adhesion assembly, adherens junction organization, and responses to mechanical stimulus, plus neurite outgrowth features like dendrite morphogenesis and axonogenesis regulation. This points to a common theme of cytoskeletal remodeling and adhesion signaling governing cell shape and movement, despite a couple of outlier terms (mitotic cycle/MAPKK) that are less central to this core function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0051893","count":3}]},{"hash":"350291819857908323","title":"Endomembrane Vesicle Trafficking","description":"These proteins cluster around intracellular transport involving the endomembrane system: Golgi-to-vacuole/lysosome transport, endocytic recycling, retrograde transport from endosome to Golgi, and dense core granule trafficking. This pattern points to a shared role in vesicle trafficking and organelle routing, rather than a single structural or metabolic function. The brain development and mitotic cohesion terms are likely incidental or reflect broader cellular processes. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904811","count":2},{"id":"GO:0006896","count":2},{"id":"GO:0007041","count":2},{"id":"GO:0090326","count":2},{"id":"GO:0042147","count":2}]},{"hash":"1544046042460462488","title":"Plant Meristem Development and Leaf Growth","description":"The dominant GO terms point to plant growth programs, especially meristem structure and growth (meristem structural organization, root meristem growth) along with leaf development, indicating a cohesive theme around plant organ development. While other terms like tRNA modification and DNA repair appear, they are less representative of the cluster\u2019s primary function compared to the meristem/leaf development signals.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016311","count":3},{"id":"GO:0002098","count":3},{"id":"GO:0009933","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0016310","count":3}]},{"hash":"1470695390079484523","title":"Multi-tissue Development and Differentiation","description":"Top GO terms indicate a broad set of developmental and differentiation processes across diverse tissues (uterus, gonads, parathyroid, heart, spinal cord interneurons). There are also roles in redox balance and signaling that modulate differentiation (cell redox homeostasis, oxidant detoxification, negative regulation of TGF-\u03b2 production and macrophage differentiation). This suggests the cluster groups proteins involved in general developmental regulation rather than a single tissue or pathway, hence a label reflecting multi-tissue developmental differentiation.","confidence":"Medium","size":10,"edges":25,"triangles":21,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0060510","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2}]},{"hash":"284203039013389678","title":"Unknown","description":"The GO terms are scattered across RNA modification, neurodevelopment, chromatin modification, reproductive development, and immune signaling, with multiple obsolete terms, giving no cohesive function or theme for the cluster. Confidence is None.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":3},{"id":"GO:0001842","count":3},{"id":"GO:0010835","count":3},{"id":"GO:1900051","count":3},{"id":"GO:0061038","count":3}]},{"hash":"2178057658963191683","title":"ER Stress and Protein Trafficking Regulation","description":"The cluster is dominated by terms related to ER-associated degradation (ERAD), unfolded protein response, and various aspects of protein localization and trafficking (e.g., post-translational targeting, nuclear export regulation). While some development-related terms appear (mesoderm and nervous system development), the shared theme centers on protein quality control and intracellular trafficking, suggesting a cohesive functional core around managing protein folding, degradation, and localization during cellular and developmental processes.","confidence":"Medium","size":10,"edges":20,"triangles":10,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0001707","count":3},{"id":"GO:1901621","count":3},{"id":"GO:0071374","count":3},{"id":"GO:0006260","count":3}]},{"hash":"205104078366899435","title":"Unknown","description":"The top terms are a patchwork of stress response, host symbiont dormancy, DNA structure, transcription and several chromatin-related processes, with many terms marked obsolete and no connecting edges among the proteins. This lack of a cohesive functional theme makes it unsafe to assign a specific, representative label. None","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":1},{"id":"GO:0085014","count":1},{"id":"GO:0071919","count":1},{"id":"GO:1905615","count":1},{"id":"GO:0009301","count":1}]},{"hash":"1745816557032722165","title":"Cerebellar development and signaling","description":"The top GO terms include cerebellar cortex formation and Bergmann glial cell differentiation, pointing to cerebellum-specific developmental roles, along with broader signaling pathways (insulin receptor and T cell receptor signaling) and transcription regulation. This suggests a cluster of proteins involved in neural development with complementary signaling and regulatory functions, centered on cerebellar biology but extending to general cell signaling. ","confidence":"Medium","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0008286","count":4},{"id":"GO:0046826","count":4},{"id":"GO:0021697","count":4}]},{"hash":"858910542072487596","title":"Mitochondrial respiration and ATP synthesis","description":"Most prominent GO terms point to mitochondrial energy production, including mitochondrial electron transport (GO:0006123), assembly of complex IV (GO:0033617), and proton motive force-driven ATP synthesis (GO:0042776). This suggests the cluster is mainly comprised of proteins involved in mitochondrial respiration and ATP generation. While there are a few outliers related to chloroplast plastid processes, stress response, and protein methylation, these are less representative of the core theme. Overall, the dominant signal supports a mitochondria-centric energy production function.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0042776","count":1},{"id":"GO:0006123","count":1},{"id":"GO:0036068","count":1}]},{"hash":"294403489198750282","title":"Unknown","description":"The top GO terms span plants, bacteria, insects, and vertebrate-like processes with no common function or pathway; terms include suspensor development, urmylation, tRNA wobble modifications, beta-lactamase regulation, peptidoglycan catabolism, amelogenesis, fat body development, and vascular smooth muscle proliferation. There are no edges or coherent cluster-wide themes, so a specific functional label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010098","count":1},{"id":"GO:0032447","count":1},{"id":"GO:0002143","count":1},{"id":"GO:0002136","count":1},{"id":"GO:0033252","count":1}]},{"hash":"2091696974658653077","title":"Neural Signaling and Sensory Modulation","description":"The GO terms cluster around neuronal communication and sensory processing: prepulse inhibition, regulation of sensory perception of pain, negative regulation of glutamatergic synaptic transmission, and response to amphetamine, with intracellular signal transduction supporting this theme. Some development-related terms (nipple morphogenesis, glomerulus and lung development) appear but likely reflect broader signaling roles rather than core unity. Overall, the dominant signal is neural signaling and sensory modulation, with some outliers.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060658","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0072224","count":2},{"id":"GO:0060427","count":2}]},{"hash":"575148134904953172","title":"N-terminal and polyamine acetylation","description":"The top GO terms are dominated by various acetylation reactions, including N-terminal peptidyl-serine/methionine acetylation, propionylation, and acetylation of spermidine/spermine. This suggests a common functional theme around acetylation processes, even though other terms (chromatin-related, mycothiol biosynthesis, leaf formation) appear less connected and may reflect broader or multifunctional proteins in the cluster.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":6},{"id":"GO:0017196","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0061606","count":6},{"id":"GO:0032918","count":6}]},{"hash":"1378493540272755320","title":"Heme biosynthesis and xenobiotic response","description":"This cluster is characterized by strong signals for porphyrin/heme biosynthesis (protoporphyrinogen IX and heme biosynthetic processes) alongside multiple xenobiotic and chemical stress responses (lipopolysaccharide, herbicide, ethanol, aluminum ion, selenium ion), with a note of transcriptional regulation. The co-occurrence suggests a module where heme metabolism is linked to detoxification or stress signaling rather than a standalone pathway.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":3},{"id":"GO:0006783","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0010269","count":2}]},{"hash":"1433845646656767006","title":"Actin Dynamics and Membrane Trafficking","description":"This cluster centers on cytoskeletal remodeling (actin depolymerization), vesicle trafficking (exocytosis, pinocytosis), and signaling interfaces (Rho, integrin, Wnt), implying coordination of actin-driven membrane traffic and adhesion signaling; ubiquitin-proteasome turnover and mRNA stability terms suggest regulation of core components.","confidence":"Medium","size":10,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1986802294786305482","title":"Lipid, steroid, and retinoid metabolism","description":"This cluster is driven by a strong enrichment in lipid-related processes (mycolic acid biosynthesis; very long-chain fatty acid biosynthesis; 3-keto-sphinganine metabolism) and steroid/retinoid pathways (estrogen biosynthesis; C21-steroid hormone metabolism; androgen catabolic; retinol and retinal metabolism). The combination suggests a cohesive theme around complex lipid metabolism and steroid/retinoid handling, with antibiotic response as a secondary stress-related signal. ","confidence":"High","size":10,"edges":15,"triangles":12,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0046677","count":7},{"id":"GO:0071768","count":6},{"id":"GO:0042574","count":6},{"id":"GO:0006666","count":6}]},{"hash":"2089334165904911581","title":"Rho-driven cytoskeletal remodeling and cell migration","description":"This cluster is enriched for GO terms on regulation of Rho signaling, filopodium assembly, and cell migration, indicating actin cytoskeleton remodeling and migratory activity. The presence of endosomal transport suggests related vesicle trafficking during movement; a few terms (mitotic spindle checkpoints, peroxisome import, X inactivation) may reflect broader or incidental associations rather than core function.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007205","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0016197","count":2},{"id":"GO:2001275","count":2}]},{"hash":"1856999055879892055","title":"Unknown","description":"The top GO terms span multiple unrelated processes (malate/transport, apoptosis, Th2 cytokine production, protein localization, GTPase regulation, synaptic vesicle endocytosis, corneocyte development, insulin response). With no edges or shared functional signal among the proteins, there isn\u2019t a cohesive theme to name a specific function cluster, so Unknown is the appropriate label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015743","count":1},{"id":"GO:0044148","count":1},{"id":"GO:0006810","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0035745","count":1}]},{"hash":"63253267408934941","title":"Cell Stress Signaling and Apoptosis Regulation","description":"The top GO terms cluster around cellular stress responses and regulatory signaling, including calcium-related signaling (ionomycin), p38 MAPK cascade regulation, apoptosis execution, inflammatory regulation (TNF), and stress responses to metabolic changes (glucose starvation) and miRNA processing. While these terms span diverse processes, they share a common theme of modulating cell fate and stress-response pathways, suggesting a group of regulators rather than a single, cohesive pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904637","count":1},{"id":"GO:1900261","count":1},{"id":"GO:1900745","count":1},{"id":"GO:1904468","count":1},{"id":"GO:1900119","count":1}]},{"hash":"1979744304220633591","title":"RNA Processing, Splicing, and Translation Initiation","description":"The top GO terms cluster around mRNA maturation (polyadenylation, spliceosome-mediated and alternative splicing), mRNA stability regulation, and translation-related steps (preinitiation complex formation and translation reinitiation) plus small-subunit processome assembly, indicating a coordinated role in RNA processing and initiation of translation. ","confidence":"High","size":10,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1963777496810080806","title":"Microbial Lipid and Carbohydrate Metabolism","description":"Most terms cluster around metabolic and biosynthetic processes, especially lipid- and carbohydrate-related pathways (poly-hydroxybutyrate, mycolic acid, 3-keto-sphinganine, galactose metabolism). Redox-related terms (oxidation-reduction, intracellular oxygen homeostasis) reinforce a metabolic context. A few terms (retinal metabolism, PTM regulation, cell cycle checkpoint) appear as outliers. The label captures the central theme of microbial metabolism with emphasis on lipids and carbohydrates. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042619","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0018401","count":2},{"id":"GO:0032364","count":2}]},{"hash":"1881027108645600554","title":"Rho/Rab GTPase Signaling and Vesicle Trafficking","description":"This cluster centers on regulation of Rho and Rab GTPases and related signaling pathways, complemented by vesicle transport processes (ER-to-Golgi and endosome-to-Golgi) and GPCR-like thrombin receptor signaling, plus PI3K/AKT interplay. The convergence on small GTPase regulation and vesicular trafficking suggests a coherent theme of GTPase-driven signaling coordinating intracellular transport.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0015031","count":1},{"id":"GO:0006888","count":1}]},{"hash":"1956150271325783633","title":"Mitochondrial Metabolite Transporters","description":"GO terms center on transport of various metabolites across mitochondrial membranes (ADP, phosphate, ornithine, CoA, heme, glycine) and the malate-aspartate shuttle, with additional links to mitochondrial apoptosis and insulin-stimulated cellular responses. This pattern suggests a cohesive cluster of proteins that mediate mitochondrial transport and energy metabolism.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":5},{"id":"GO:0035349","count":4},{"id":"GO:0008637","count":4},{"id":"GO:0000066","count":4},{"id":"GO:0015886","count":4}]},{"hash":"1310731838345318580","title":"Ubiquitin-Dependent Protein Degradation (ERAD)","description":"The top GO terms show a clear emphasis on ubiquitination processes (ubiquitin-dependent ERAD, K63-linked ubiquitination, autoubiquitination), pointing to a theme of ubiquitin-mediated protein degradation and quality control. Although a few terms touch on other processes, the strongest signal centers on ubiquitin signaling and ERAD-related protein turnover, justifying a label focused on this core function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0007281","count":2},{"id":"GO:0090035","count":1},{"id":"GO:0070534","count":1},{"id":"GO:0030579","count":1}]},{"hash":"996443324249444054","title":"Mitochondrial biogenesis and growth regulation","description":"The cluster is dominated by mitochondria-related terms: positive regulation of mitochondrial translation, protein insertion into the mitochondrial membrane, cristae formation, and cell redox homeostasis, with additional growth-related terms like regulation of growth and multicellular organism growth. These connect around mitochondrial function influencing cellular energy and development, rather than unrelated processes; some terms tied to specific tissues (Purkinje cells, platelets) likely reflect broader mitochondrial roles in those contexts. Overall, the strongest shared theme is mitochondrial biogenesis and metabolism linked to growth.","confidence":"High","size":10,"edges":12,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0040008","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0021702","count":2},{"id":"GO:0070131","count":1},{"id":"GO:0051204","count":1}]},{"hash":"71755553967578758","title":"Phytochrome-mediated red/far-red light signaling","description":"These proteins cluster around red/visible light detection and phototransduction, with downstream transcriptional regulation and a tetrapyrrole-linked chromophore, hallmark features of phytochrome-type photoreceptors that translate light cues into gene expression and cell-cycle responses.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051775","count":2},{"id":"GO:0010201","count":2},{"id":"GO:0010203","count":2},{"id":"GO:0000160","count":2}]},{"hash":"1738231355122147365","title":"Chromatin Modification and Transcription Regulation","description":"The top GO terms point to histone modifications (deubiquitination, H3K4/K79 methylation, acetylation), ubiquitin-proteasome\u2013dependent protein turnover, and DNA-templated transcription (including snRNA transcription). This combination suggests a cluster centered on chromatin state control and transcriptional regulation in the nucleus. A couple of terms about defense may be incidental noise, but the dominant signal supports chromatin modification and transcription regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035522","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0050830","count":2}]},{"hash":"85779193553783054","title":"Translation and RNA Metabolism","description":"The cluster centers on translation processes (initiation, elongation, termination) and mitochondrial translation, with associated RNA turnover and processing signals, indicating a core role in protein synthesis and RNA metabolism. A few outliers (glial proliferation, viral genome replication, antibiotic response) may reflect multifunctional proteins or annotation noise.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014009","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0006412","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0006415","count":1}]},{"hash":"2150657782100819025","title":"Bacterial fatty acid and lipid metabolism","description":"The GO terms show a strong theme of lipid biology, including propylene catabolic process, polyhydroxybutyrate biosynthesis, mycolic acid biosynthesis, very long-chain fatty acid biosynthesis, and sphingolipid-related metabolism, along with retinal/retinol turnover. Together these indicate both biosynthetic and degradative lipid pathways characteristic of bacteria (PHB storage, complex lipids like mycolic acids, long-chain fatty acids), with related but secondary links to retinoid metabolism. Thus, a unifying label focusing on lipid metabolism best reflects the cluster\u2019s function.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042208","count":4},{"id":"GO:0042619","count":4},{"id":"GO:0071768","count":3},{"id":"GO:0042574","count":3}]},{"hash":"786665374437015833","title":"Innate and Adaptive Immune Signaling","description":"The dominant GO terms point to immune system activity, with innate immune response, defense against virus, and B cell receptor signaling indicating both innate and adaptive immune signaling. Additionally, regulation of Rho protein signal transduction and cellular response to mechanical stimulus suggest cytoskeletal remodeling and cell interaction processes common in immune cells. Some terms (glucose import regulation and SA node action potential) are outliers, but the majority supports an immune signaling theme, so the label captures the cluster's representative function even without network edges.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0051262","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0045087","count":2}]},{"hash":"229030275324358286","title":"Intracellular signaling and actin remodeling","description":"The top GO terms cluster around intracellular signal transduction and signaling pathways (including Wnt signaling and regulation of SA node action potential) together with actin cytoskeleton organization (actin filament bundle assembly). This points to a common theme of signaling events coupled with cytoskeletal dynamics, with peripheral references to turnover and immune-related processes. Thus the label reflects the core connection between signaling cascades and actin remodeling in this cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010650","count":1},{"id":"GO:0051017","count":1},{"id":"GO:0033028","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0016055","count":1}]},{"hash":"1879317960457261776","title":"Nuclear transcription machinery","description":"This cluster is dominated by GO terms tied to DNA-templated transcription and RNA polymerase II preinitiation complex assembly, both nuclear activities indicating components of the transcription machinery. The other terms (neuropeptide processing and LDL receptor catabolic regulation) are low-frequency annotations, likely reflecting secondary roles or annotation noise. Overall, a transcription-focused label best captures the main common function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0002943","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0090472","count":1}]},{"hash":"2218795117221030733","title":"Neuronal development and synaptic vesicle regulation","description":"The top GO terms cluster around brain and nervous system development (brain development, nervous system development) and synaptic function (regulation of synaptic vesicle exocytosis, positive regulation of axon extension), suggesting the proteins are involved in neuronal differentiation and synaptic transmission. Additional terms like ubiquitin-dependent proteolysis and cytoskeletal remodeling (stress fiber assembly) point to broader cellular processes, but the dominant theme is neural development and synaptic activity.","confidence":"Medium","size":9,"edges":10,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":5},{"id":"GO:0007420","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1355357273764196116","title":"Dendritic Spine Development and Synaptic Vesicle Exocytosis","description":"This cluster is best described by neuronal development and synaptic regulation, driven by terms like brain development and regulation of synaptic vesicle exocytosis, as well as positive regulation of dendritic spine development and regulation of dendritic spine morphogenesis. The presence of ubiquitination hints at protein turnover linked to synaptic remodeling, and ruffle assembly suggests actin-driven changes at synapses. While some terms touch cell cycle processes, the strongest signal centers on neuronal differentiation and synaptic structure/function.","confidence":"Medium","size":9,"edges":14,"triangles":6,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0016567","count":3},{"id":"GO:2000300","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0031384","count":3}]},{"hash":"2023447976492559747","title":"Actin dynamics in immune cell motility and phagocytosis","description":"The top terms cluster around actin polymerization and assembly of actin-based structures (podosomes, filopodia, ruffles), cell spreading and polarity, endocytosis, and phagocytic engulfment, with T cell receptor signaling linking cytoskeletal remodeling to immune cell activation. This suggests a cohesive theme of actin-driven membrane remodeling underlying cell movement and uptake processes.","confidence":"High","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034260","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0030838","count":5},{"id":"GO:0097178","count":5},{"id":"GO:1900026","count":5}]},{"hash":"879812060962578507","title":"Epidermal Development and Wound Healing","description":"The top GO terms cluster around skin-related biology: keratinocyte development, epithelial morphogenesis, and wound healing, with supporting signals for cell polarity and actin cytoskeleton dynamics, suggesting epidermal morphogenesis and repair processes. The presence of melanosome assembly also aligns with skin/pigment-related functions, reinforcing a skin-centric cluster theme.","confidence":"High","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044319","count":4},{"id":"GO:0003334","count":4},{"id":"GO:0003382","count":4},{"id":"GO:0031532","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1319186570440349142","title":"Unknown","description":"The top GO terms span several unrelated biological areas (plant ABA signaling, neuronal regulation, immune development, muscle differentiation, and others) with no clear shared function. The cluster has no edges or triangles, suggesting no cohesive interaction pattern. Because there is no unifying theme tying these proteins together, a specific functional label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009738","count":2},{"id":"GO:0032228","count":1},{"id":"GO:0060304","count":1},{"id":"GO:0002337","count":1},{"id":"GO:0021814","count":1}]},{"hash":"866256355861590273","title":"Neural signaling and behavior","description":"Most GO terms are tied to nervous system function and behavior: olfactory and vocalization behavior, habituation, balance-related neuromuscular control, and modulation of long-term synaptic potentiation, pointing to neural signaling and synaptic plasticity as the cluster's core. Some terms (platelet aggregation, cell-substrate junction assembly) are less representative and may reflect shared cellular components rather than a single pathway, but the neural terms dominate.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":3},{"id":"GO:0048009","count":2},{"id":"GO:0046959","count":2},{"id":"GO:0007044","count":2},{"id":"GO:0042048","count":2}]},{"hash":"1984440903432788546","title":"Unknown","description":"Top GO terms are diverse, spanning development (cerebral cortex development, labyrinthine layer blood vessel development, erythrocyte differentiation), cell regulation (negative regulation of cell population proliferation, apoptotic process, DNA-templated transcription), and unrelated processes (thiamine biosynthetic process, protein sumoylation, sperm capacitation). This lack of a single cohesive functional theme among the terms suggests the cluster does not map to a specific biological function.","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0048240","count":3},{"id":"GO:0045793","count":3}]},{"hash":"1623988514336861527","title":"Developmental Growth and Chromatin Assembly","description":"This cluster centers on developmental processes (growth, brain and gonad development, fertilization, osteoblast differentiation) and includes CENP-A chromatin assembly, suggesting a chromatin- and development-focused program; additional terms (GTPase activity, RNA guanine-N7 methylation, protein heterotrimerization, and defense response) indicate broader cellular regulation that can accompany development, but the core theme remains developmental and chromatin-related.","confidence":"Low","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0061641","count":2}]},{"hash":"447072686659344732","title":"Ubiquitin-Regulated Immune Signaling","description":"The cluster centers on immune receptor\u2013mediated signaling (Fc-epsilon receptor, C-type lectin receptor, and T cell receptor pathways) and non-canonical NF-kB signaling, all intertwined with ubiquitin- and SUMO-based regulation (SUMOylation, deubiquitination, SCF-proteasome\u2013dependent degradation, and APC-related catabolism). The inclusion of viral process terms reinforces a host\u2013pathogen signaling context. Altogether, these proteins likely function as a module coordinating ubiquitin/SUMO modifications to control immune signaling and protein turnover.","confidence":"High","size":9,"edges":30,"triangles":49,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0038095","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0038061","count":3},{"id":"GO:0002223","count":3}]},{"hash":"1051336921591544085","title":"Iron uptake via endocytosis","description":"This cluster centers on iron metabolism signals: iron ion import across the plasma membrane, transferrin transport, receptor-mediated endocytosis, and intracellular iron homeostasis, pointing to an iron acquisition and regulation role. A few terms relate to unrelated processes (meristem regulation, deglutamylation, vacuolar protein catabolism), but the iron-related terms dominate. ","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098707","count":1},{"id":"GO:0006898","count":1},{"id":"GO:0033572","count":1},{"id":"GO:0010081","count":1},{"id":"GO:0042135","count":1}]},{"hash":"2020872673707515510","title":"Ubiquitin-Dependent ERAD and Protein Catabolism","description":"The top GO terms are dominated by ubiquitin-dependent ERAD pathway and ubiquitin-dependent protein catabolic process, indicating a proteostasis-focused cluster. While some terms (e.g., cartilage morphogenesis, chlorophyll biosynthesis) are less related and may reflect annotation noise, the strongest signal centers on protein turnover via ubiquitin-mediated degradation.","confidence":"Medium","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1901253","count":2},{"id":"GO:0042787","count":2},{"id":"GO:1905050","count":1},{"id":"GO:0003429","count":1}]},{"hash":"1606076260348318609","title":"Actin Cortex Remodeling and Podosome/Ruffle Assembly","description":"This cluster centers on actin cytoskeleton dynamics, including cortex patches, podosome/ruffle formation, and Rho-regulated signaling, with synaptic and immune contexts reflecting actin-driven remodeling.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":2},{"id":"GO:0002316","count":2},{"id":"GO:1990314","count":2},{"id":"GO:0071800","count":2},{"id":"GO:0035023","count":2}]},{"hash":"885560106091035283","title":"Post-transcriptional RNA processing and gene silencing","description":"The cluster is dominated by spliceosome-related processes (mRNA splicing, alternative splicing, and splicing regulation), plus other post-transcriptional steps (polyadenylation, mRNA stability regulation) and RNA silencing pathways (miRNA-mediated and regulatory ncRNA\u2013mediated silencing), pointing to a coherent theme of RNA processing and post-transcriptional gene regulation. Some terms are peripheral or obsolete but fit within RNA metabolism context.","confidence":"Medium","size":9,"edges":24,"triangles":28,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0034462","count":2},{"id":"GO:0075525","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2}]},{"hash":"1435893312526435063","title":"Cardiac conduction and contraction regulators","description":"Most top GO terms cluster around heart-related functions: regulation of heart rate, regulation of heart contraction, and regulation of cell communication by electrical coupling involved in cardiac conduction, along with store-operated calcium channel activity relevant to cardiac excitation\u2013contraction coupling. While a few terms touch on vascular signaling or other tissues (VEGF signaling, skeletal muscle differentiation, phototransduction, lung differentiation), the dominant pattern is proteins involved in cardiac electrical activity and contractile regulation.","confidence":"High","size":9,"edges":12,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030948","count":3},{"id":"GO:0035335","count":3},{"id":"GO:2001015","count":2},{"id":"GO:0002027","count":2},{"id":"GO:1901339","count":2}]},{"hash":"619243848383817361","title":"Secretory Trafficking and Cytokinesis Regulation","description":"This cluster centers on vesicle trafficking and membrane delivery processes, including the constitutive secretory pathway, membrane addition at the cytokinesis site, and regulation of vacuole/secretory organelle fusion. Coupled with terms for cytokinesis regulation and protein kinase signaling (and ubiquitination), the dominant theme appears to be coordinated trafficking and signaling that drive cytokinesis and organelle biogenesis (e.g., melanosomes). Peripheral terms like neuronal migration may reflect broader cytoskeletal/trafficking roles. ","confidence":"Medium","size":9,"edges":15,"triangles":8,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0032889","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0045859","count":3}]},{"hash":"993688412096338463","title":"Heavy metal stress and ubiquitin-proteasome degradation","description":"The cluster shows enrichment for heavy metal responses (methylmercury, arsenic, cadmium) and for ubiquitin-dependent protein degradation (SCF-dependent ubiquitin-proteasomal, protein polyubiquitination), indicating a proteostasis/metal-stress theme; regulation of circadian rhythm is a related regulatory angle but less central.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":4},{"id":"GO:0071406","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0046685","count":4},{"id":"GO:0071276","count":4}]},{"hash":"996395926287568048","title":"ER stress proteostasis and quality control","description":"This cluster centers on proteins involved in maintaining protein folding homeostasis under stress, particularly in the endoplasmic reticulum. Terms include unfolded protein response, ER targeting and translocation, ER-associated degradation (ERAD), translation regulation during ER stress, and ubiquitin-proteasome\u2013mediated nuclear quality control, plus redox balance. Together they point to a cohesive proteostasis/ER-stress regulatory module.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0006986","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0036494","count":1}]},{"hash":"1322534272747679130","title":"Mitochondrial gene expression and respiration","description":"The cluster shows multiple mitochondrial-centric processes: NADH to ubiquinone electron transport, assembly of complex II, and regulation of mitochondrial membrane potential, along with DNA-templated transcription and translation terms that align with mitochondrial gene expression. Mitochondrion inheritance supports a mitochondrial-biogenesis theme as well. A couple of terms (antibiotic response, extracellular matrix disassembly) are less clearly connected, but the dominant signal points to mitochondrial function and expression. ","confidence":"Medium","size":9,"edges":32,"triangles":59,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006351","count":2}]},{"hash":"958478657645216024","title":"Unknown","description":"The top terms cover a broad mix of metabolism, organelle biogenesis, immune regulation, intracellular trafficking, and tissue-specific differentiation (wing/cone cell fate, spermatid differentiation), with no clear unifying function or pathway linking them. Therefore there is no coherent label that accurately describes the cluster as a single biological theme.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006067","count":1},{"id":"GO:0061668","count":1},{"id":"GO:0032815","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0035311","count":1}]},{"hash":"1343501149462845178","title":"Rab-Mediated Membrane Trafficking","description":"These proteins show a convergence on Rab GTPase signaling and various membrane- and organelle-focused processes (negative regulation of GTPase activity, regulation of vacuole fusion, membrane addition at cytokinesis, mitochondrion\u2013ER tethering, and glycosylation pathways). This pattern points to membrane trafficking and inter-organelle communication as the core theme, with some unrelated terms (kidney development, myeloid apoptosis) likely representing broader or incidental annotations. Overall, the cluster appears to reflect GTPase-regulated membrane dynamics.","confidence":"Medium","size":9,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0035269","count":2},{"id":"GO:0032889","count":1},{"id":"GO:0007107","count":1}]},{"hash":"1287350765151087224","title":"Eye and retinal development","description":"The cluster\u2019s top GO terms cluster around ocular formation and retinal function, including embryonic camera-type eye development, retinal metabolic process, and cellular response to retinoic acid, plus related tissues like Harderian gland development and endothelial proliferation relevant to ocular vascularization. While a couple of terms touch on metabolism and hypoxia, the dominant signal is eye/retina development and associated signaling, suggesting a cohesive label.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0031076","count":9},{"id":"GO:0036293","count":9},{"id":"GO:0055129","count":9},{"id":"GO:0071300","count":9},{"id":"GO:0070384","count":9}]},{"hash":"437881511802903753","title":"Metabolite-Driven Transcription Regulation","description":"This cluster centers on regulation of RNA polymerase II\u2013mediated transcription in response to metabolic cues (e.g., oleic acid, carbon source) and links to biosynthetic pathway regulation (amino acids, nucleotides, sterols) as well as general DNA-templated transcription. The recurring GO terms describe positive/negative regulation of transcription by metabolic contexts, suggesting a cohesive theme of transcriptional control driven by cellular metabolism rather than a single metabolic enzyme.","confidence":"High","size":9,"edges":28,"triangles":41,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0061429","count":2},{"id":"GO:2001278","count":2},{"id":"GO:0035969","count":2},{"id":"GO:1900399","count":2},{"id":"GO:0035959","count":2}]},{"hash":"1002229398102581051","title":"Ubiquitin-Proteasome Regulation and DNA Repair","description":"The terms point to a core theme of ubiquitin-proteasome\u2013mediated protein turnover (ERAD, SCF-proteasome, free ubiquitin chains) together with chromatin organization and DNA repair (homologous recombination), and apoptosis/cell cycle regulation (mitotic cycle, spindle checkpoint). This suggests the proteins collectively participate in proteostasis linked to genome maintenance and chromatin dynamics, possibly coordinating protein degradation with DNA damage response and cell-cycle progression in stress conditions.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0006348","count":2}]},{"hash":"1666504783587634834","title":"Neural gene expression and epigenetic regulation","description":"The top terms cluster around transcriptional control (mRNA splicing, DNA-templated transcription) and chromatin modification (histone methylation), with brain-related terms (brain development, behavioral fear response) anchoring the context in neural processes. A few metabolic terms appear as outliers, likely annotation noise, but the dominant theme is gene expression regulation in neural development.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2}]},{"hash":"1740091094538836150","title":"DNA repair and oxidative stress response","description":"Core signals are DNA repair (base-excision repair; nucleotide-excision repair) and oxidative/xenobiotic stress responses (hydrogen peroxide, xenobiotic stimulus), implying genome maintenance under stress. Secondary links include metal ion responses (cadmium, zinc) and regulation of mRNA stability, with some noise from aging and lung development terms.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0070301","count":2}]},{"hash":"1321700827854011372","title":"Nucleotide salvage and interconversion","description":"The GO terms cluster around salvage and interconversion of nucleotides and nucleobases (inosine/guanosine salvage, nicotinate nucleotide salvage, purine/pyrimidine catabolic and nucleobase interconversion processes), indicating a cohesive theme of nucleotide metabolism. Some entries are obsolete, but the prevailing signal supports a nucleotide salvage/interconversion function. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":2},{"id":"GO:1901097","count":2},{"id":"GO:0006218","count":1},{"id":"GO:0006152","count":1},{"id":"GO:0006206","count":1}]},{"hash":"1630262951599142555","title":"Cerebellar cortex development and MAPK signaling","description":"Top terms cluster around cerebellar development (cerebellar cortex formation, Bergmann glial cell differentiation) and MAPK/ERK signaling regulation (negative regulation of ERK1/ERK2 cascade, MAPK activity), with axon regeneration and related signaling pathways also represented. While some terms reflect broader signaling contexts (insulin receptor, T cell receptor signaling), the strongest signal centers on cerebellar development and MAPK-regulated neural signaling.","confidence":"High","size":9,"edges":26,"triangles":35,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070373","count":5},{"id":"GO:0060020","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0021697","count":5},{"id":"GO:0050860","count":5}]},{"hash":"1850081962498304227","title":"RNA processing and translation initiation","description":"The proteins are enriched for RNA processing and translation-related functions (spliceosome and small-subunit processome assembly, preinitiation complex formation, translation reinitiation), plus regulatory ncRNA-mediated gene silencing. This suggests a cohesive module linking RNA processing to early translation control.","confidence":"High","size":9,"edges":12,"triangles":3,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0001731","count":5},{"id":"GO:1901407","count":5},{"id":"GO:0002188","count":5}]},{"hash":"17832732215290269","title":"Neural GTPase Signaling Regulation","description":"The top GO terms point to regulation of GTPase activity (Rho/Ras), including phosphorylation events and signaling pathways, with several terms related to brain and spinal cord development. This pattern suggests a cluster of proteins involved in GTPase-mediated signaling and neural development, rather than a single enzymatic function. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0007018","count":3}]},{"hash":"599047780010768102","title":"Bacterial Cofactor Biosynthesis and Respiration","description":"The top GO terms point to biosynthesis of cofactors (menaquinone, biotin, and pyrroloquinoline quinone) and aerobic respiration, suggesting a bacterial metabolic module focused on energy generation and cofactor production. Other terms such as tRNA methylation and xenobiotic response are present but less central, likely representing peripheral or multifunctional roles.","confidence":"High","size":9,"edges":28,"triangles":44,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0035690","count":2}]},{"hash":"1997637528975661306","title":"Zinc ion homeostasis and transport","description":"The cluster shows strong representation of zinc-related functions: zinc ion import across the plasma membrane, intracellular zinc ion homeostasis, detoxification of zinc ion, and cellular response to zinc ion starvation, plus related metal transport like cadmium. Together these terms indicate a shared role in maintaining zinc balance and mediating zinc transport across membranes. Some outlier terms (ERAD, NER, limb development) appear less connected and may reflect annotation noise, but do not override the zinc-centric theme.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006289","count":2},{"id":"GO:0006882","count":1},{"id":"GO:0044749","count":1},{"id":"GO:1903615","count":1}]},{"hash":"783961374932386970","title":"Developmental morphogenesis and synapse organization","description":"This cluster centers on developmental processes across tissues (angiogenesis, lung morphogenesis, seminiferous tubule development) and on the assembly/maintenance of cellular contacts (synapse structure/assembly), with supporting roles in glycan processing and cell maturation. The common theme appears to be coordinated tissue development and organization at the cellular level, including synaptic and planar polarity aspects.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0006491","count":2},{"id":"GO:0099558","count":1},{"id":"GO:0060490","count":1},{"id":"GO:0048469","count":1}]},{"hash":"492713969595927704","title":"Bacterial biosynthesis and growth pathways","description":"The cluster shows enrichment in biosynthetic processes (antibiotic, biotin, menaquinone), plus growth-related terms (cell growth, cell cycle) and xenobiotic/cAMP responses, which together suggest a set of bacterial proteins involved in primary metabolism and biosynthesis rather than a single, specific function. The presence of multiple biosynthesis terms characteristic of microbial metabolism supports a broad metabolic/growth theme for this cluster.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0016049","count":2}]},{"hash":"1791746771289391971","title":"Unknown","description":"Top GO terms span telomere biology, snoRNP assembly, RNA processing, DNA repair and replication, development, chromatin dynamics, and PAR-driven ATP generation, with no single cohesive function emerging. The absence of a common pathway or process, plus zero edges/triangles, suggests the proteins do not share a clear unified role, so the cluster is best labeled Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904874","count":1},{"id":"GO:0000493","count":1},{"id":"GO:2000233","count":1},{"id":"GO:0006273","count":1},{"id":"GO:0043504","count":1}]},{"hash":"1617401678481416203","title":"Ubiquitin-dependent protein degradation","description":"Top terms highlight ubiquitin-dependent protein catabolic processes and polyubiquitination, pointing to ubiquitin\u2013proteasome\u2013mediated degradation as the core function. Secondary terms touch on circadian regulation, metal stress responses, and cell-cycle regulation, which are linked to proteolysis and transcriptional control, with a weaker but present signal for synapse assembly.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0042752","count":4},{"id":"GO:0071406","count":4}]},{"hash":"2066243132661112970","title":"Mitochondrial Transporters and Energy Metabolism","description":"These proteins cluster around mitochondrial membrane transport and energy-related processes, as indicated by GO terms for transmembrane transport of CoA, ADP, ornithine, heme, phosphate, glycine, and the malate-aspartate shuttle, plus adaptive thermogenesis. This suggests a cohesive role in mitochondrial metabolite transport and energy homeostasis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035349","count":9},{"id":"GO:0008637","count":9},{"id":"GO:0000066","count":9},{"id":"GO:0015886","count":9},{"id":"GO:0015866","count":9}]},{"hash":"2162432826941844588","title":"Neuronal Mitochondrial Signaling and ROS Regulation","description":"This cluster centers on neural activity-related GO terms (learning, behavioral fear response, neuron-neuron synaptic transmission) alongside mitochondrial-centric terms (protein import into mitochondrial matrix; regulation of mitochondrion autophagy; regulation of ROS metabolism; monoatomic anion transport across membranes). The convergence suggests a module where neuronal signaling is linked to mitochondrial energy management and redox control, with a minor nod to regeneration contexts. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":1},{"id":"GO:0006820","count":1},{"id":"GO:0031101","count":1},{"id":"GO:0007612","count":1},{"id":"GO:0030855","count":1}]},{"hash":"682340502411296782","title":"Midbrain dopaminergic neuron development and synaptic regulation","description":"GO terms point to midbrain dopaminergic neuron development (substantia nigra development, dopaminergic neuron differentiation) and to synaptic transmission regulation (vesicle exocytosis/endocytosis, excitatory postsynaptic potential), suggesting a cluster focused on dopaminergic neuron development and synaptic function, with a few unrelated terms present.","confidence":"High","size":8,"edges":18,"triangles":16,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0010738","count":6},{"id":"GO:1904948","count":6},{"id":"GO:0035690","count":6},{"id":"GO:0090334","count":6}]},{"hash":"1378158390135512585","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around brain development, neuronal processes, and synaptic signaling (brain development, regulation of GABAergic transmission, presynapse to nucleus signaling, and cortical radial glia\u2013guided migration), suggesting a coherent theme of neural development and synaptic function. Translation and phosphatidylinositol dephosphorylation regulation can support neuronal signaling and growth, though some terms (B cell differentiation, granuloma formation, myoblast fusion) are less tied to neural processes, which lowers overall confidence slightly.","confidence":"Medium","size":8,"edges":13,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0032228","count":2},{"id":"GO:0060304","count":2},{"id":"GO:0002337","count":2}]},{"hash":"1851987731609477722","title":"Rac-driven actin remodeling and vesicle trafficking","description":"The cluster is dominated by Rac signaling and actin dynamics terms (filopodium assembly, stress fiber assembly, positive regulation of cell spreading), indicating actin remodeling. It also includes endocytosis and endosome-to-Golgi transport terms, plus Cvt pathway, pointing to coordinated membrane trafficking linked to cytoskeletal changes. A mitotic spindle assembly term broadens the cytoskeletal scope but does not negate the core Rac-actin\u2013trafficking theme.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0051496","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0043552","count":4}]},{"hash":"1210681127004766530","title":"Neuro-muscle development and cell cycle regulation","description":"The cluster shows a mix of cell-cycle and DNA replication terms (DNA replication, mitotic cell cycle, transcription-related terms) alongside neural and muscle development signals (myoblast fusion, axonogenesis, regulation of developmental growth, visual perception). This points to genes involved in developmental differentiation of neural and muscular tissues, with concurrent roles in cell proliferation. The label captures both developmental differentiation and proliferation themes without overextending to unrelated processes.","confidence":"Medium","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0046827","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":4}]},{"hash":"707576113292917011","title":"Chromatin acetylation and remodeling","description":"This cluster is enriched for acetylation-related GO terms (N-terminal peptidyl-glutamic acid acetylation, histone H4 acetylation, spermidine acetylation) and chromatin-associated processes (subtelomeric heterochromatin formation, centromeric cohesion), pointing to a common theme of acetylation-driven chromatin regulation and chromosome dynamics. Some development-related terms (angiogenesis, neural tube closure, leaf formation) appear in the list, suggesting potential cross-species annotations or broader regulatory links, but the core signal centers on chromatin modification by acetylation.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0001843","count":4},{"id":"GO:0006348","count":3},{"id":"GO:0032918","count":3},{"id":"GO:2000025","count":3}]},{"hash":"340787192810772776","title":"Calcium signaling and cardiac function","description":"Most terms center on cellular response to calcium ion, and on heart-related processes (regulation of heart rate, regulation of heart contraction, electrical coupling in cardiac conduction), plus store-operated calcium channel activity. This pattern strongly points to calcium-dependent signaling mechanisms governing cardiac activity; a couple of terms (phototransduction, lung epithelium differentiation) are peripheral to this core theme.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071277","count":2},{"id":"GO:2001015","count":1},{"id":"GO:0002027","count":1},{"id":"GO:1901339","count":1},{"id":"GO:0007602","count":1}]},{"hash":"2111721470469324699","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":12,"triangles":4,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0071035","count":3},{"id":"GO:1902775","count":3},{"id":"GO:0034475","count":3},{"id":"GO:0009650","count":3}]},{"hash":"273257416934452266","title":"Unknown","description":"The terms include synapse maintenance and assembly, various developmental processes, and sugar signaling, with no shared functional thread and no edges linking proteins. Because there is no clear common function, the cluster cannot be confidently labeled beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0099558","count":1},{"id":"GO:0060490","count":1},{"id":"GO:0009731","count":1},{"id":"GO:0048469","count":1},{"id":"GO:0072520","count":1}]},{"hash":"1757668118901617662","title":"Muscle development and neural-vascular signaling","description":"The cluster prominently features terms tied to myoblast fusion, cell-matrix adhesion, and developmental growth, alongside receptor signaling pathways such as VEGF and PDGF, as well as axonogenesis. This pattern suggests a cohesive theme of muscle formation and growth coordinated with neural and vascular patterning, pointing to interconnected developmental signaling across muscle, nerve, and blood vessel contexts.","confidence":"High","size":8,"edges":19,"triangles":23,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001954","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0048638","count":8},{"id":"GO:0007520","count":8},{"id":"GO:0021952","count":8}]},{"hash":"887304809436720262","title":"Cardiac conduction and calcium signaling","description":"The cluster\u2019s top GO terms cluster around heart function and calcium dynamics, including regulation of heart rate, regulation of heart contraction, regulation of cell communication by electrical coupling in cardiac conduction, and store-operated calcium channel activity, all pointing to cardiac electrical activity and calcium signaling as the core theme. A few terms related to phototransduction or differentiation are evident but do not outweigh the dominant cardiac/conduction signals. Confidence: High.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001015","count":3},{"id":"GO:0002027","count":3},{"id":"GO:1901339","count":3},{"id":"GO:0007602","count":3},{"id":"GO:0008016","count":3}]},{"hash":"1231998476678426054","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to ribosome function and protein synthesis\u2014translation (cytosolic and mitochondrial), ribosome biogenesis, small subunit assembly, ribosome disassembly, and rRNA maturation\u2014indicating a cohesive group of proteins involved in ribosome assembly and function across compartments. A couple of outlier terms (response to antibiotic, nerve growth factor stimulus) are present but do not define the main theme. ","confidence":"High","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0032790","count":2},{"id":"GO:0000028","count":1}]},{"hash":"1531266363441469588","title":"Xenobiotic and sugar transporters","description":"Based on the top GO terms, this cluster appears to group proteins involved in transmembrane transport of diverse substrates, especially sugars (glucose, fructose, sialic acid), urate, and xenobiotics. The strong representation of xenobiotic transmembrane transport and various sugar transport terms suggests a transporter/solute carrier-like function, with a few metabolism-related terms appearing secondary. Confidence in this thematic label is medium.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0060731","count":2},{"id":"GO:0042908","count":2},{"id":"GO:0015739","count":2},{"id":"GO:0015747","count":2}]},{"hash":"475257807213338559","title":"Ubiquitination and Proteasomal Degradation","description":"This cluster is dominated by ubiquitin-related processes: ubiquitin-dependent ERAD, autoubiquitination, polyubiquitination, SCF-dependent proteasomal degradation, and general ubiquitin-dependent protein catabolic processes, with additional terms about regulation of ubiquitination and heat- and stress-related signaling. These cohesively point to a common role in tagging proteins for degradation via the ubiquitin-proteasome system and related regulation.","confidence":"High","size":8,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0051865","count":4},{"id":"GO:1903265","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0031146","count":2}]},{"hash":"1933625900914630703","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009793","count":2},{"id":"GO:0031425","count":2},{"id":"GO:0001682","count":2},{"id":"GO:1905639","count":2},{"id":"GO:0090617","count":2}]},{"hash":"2043426076442544873","title":"Amino Acid Biosynthesis Network","description":"The top GO terms cluster around biosynthetic and related metabolic processes for amino acids (serine, tryptophan, 2-oxobutyrate, pyruvate-derived pathways) and adjacent catabolic/sulfur-containing metabolism (homocysteine, hydrogen sulfide; coenzyme M). This pattern supports a coherent theme of amino acid production and connected metabolic routes across the proteins, justifying a focused label for the cluster.","confidence":"High","size":8,"edges":26,"triangles":44,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":5},{"id":"GO:0019700","count":3},{"id":"GO:0006564","count":3},{"id":"GO:0070814","count":3},{"id":"GO:0009097","count":3}]},{"hash":"2235942117550092605","title":"Unknown","description":"The GO terms are highly diverse, spanning tRNA wobble modification, cobalamin biosynthesis, viral genome replication, transcription preinitiation complex assembly, translesion synthesis, various disassembly processes, stress granule dynamics, microtubule depolymerization, and competence for transformation. There is no clear unifying function linking these proteins, so a single cohesive label isn\u2019t apparent.","confidence":"","size":8,"edges":13,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0019079","count":2},{"id":"GO:1903862","count":2},{"id":"GO:0045899","count":2}]},{"hash":"2288073715926699332","title":"Nuclear transcription and DNA repair regulation","description":"Most terms in this cluster point to nuclear gene regulation, notably DNA-templated transcription, together with DNA repair processes (base-excision repair and regulation of homologous recombination) and chromatin-related modifications (desuccinylation and histone deacetylation contexts). Although a few terms relate to signaling or immune/metabolic pathways (leptin signaling, MHC II biosynthesis), the dominant theme ties transcription control to genome maintenance in the nucleus, justifying a label centered on transcription and DNA repair. ","confidence":"Medium","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:2000774","count":3},{"id":"GO:1990383","count":3},{"id":"GO:0045348","count":3},{"id":"GO:0033210","count":3}]},{"hash":"211436588311454237","title":"Chorismate-derived aromatic metabolite biosynthesis","description":"This cluster\u2019s GO terms cluster around chorismate metabolism and its conversion to aromatic compounds, including L-tyrosine, L-phenylalanine, salicylic acid, and pyochelin biosynthesis. The coherence around the shikimate/chorismate pathway and its downstream aromatics suggests a shared function, with a few unrelated terms present as minor noise.","confidence":"High","size":8,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046417","count":1},{"id":"GO:0006571","count":1},{"id":"GO:0042864","count":1},{"id":"GO:0009094","count":1},{"id":"GO:0009697","count":1}]},{"hash":"1104946343160582322","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0019079","count":6},{"id":"GO:0034475","count":6},{"id":"GO:0071031","count":6}]},{"hash":"804914721770250349","title":"Chromatin silencing and transcription regulation","description":"This cluster is dominated by GO terms related to chromatin state and transcription control, including DNA-templated transcription, rDNA heterochromatin formation and maintenance, histone deacetylation (peptidyl-lysine deacetylation), and negative regulation of RNA Pol II transcription. Together these suggest a coherent role in establishing/maintaining heterochromatin and repressing transcription. Other terms hint at broader stress- or immune-related responses, but the core theme centers on chromatin regulation and transcriptional silencing.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0045820","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0034983","count":3},{"id":"GO:0060303","count":3}]},{"hash":"1226420682754785902","title":"Actin dynamics and mitochondrial inheritance","description":"The top GO terms cluster around actin cytoskeleton organization and remodeling (cortical patch assembly, actomyosin ring contraction, filament bundle assembly) and mitochondrion localization/inheritance, suggesting these proteins coordinate actin-driven movement with mitochondrial partitioning. Some terms point to calcium response and chromatin processes, but the strongest signal is actin remodeling linked to mitochondrial inheritance.","confidence":"Medium","size":8,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":2},{"id":"GO:0000916","count":2},{"id":"GO:0051654","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0000001","count":2}]},{"hash":"1065158650241785746","title":"Mitochondrial quality control and ubiquitination","description":"The GO terms cluster around mitochondrial dynamics and stress responses, including positive regulation of mitochondrial membrane potential, fission, and negative regulation of fusion, as well as unfolded protein response and ubiquitination (poly- and autoubiquitination). This pattern points to mitochondrial quality control and protein homeostasis under stress, with some additional metabolic signaling context (e.g., insulin secretion regulation). Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":1},{"id":"GO:0097039","count":1},{"id":"GO:0010918","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0010637","count":1}]},{"hash":"933395006041632706","title":"Stress Response and Protein Homeostasis","description":"These proteins co-occur with GO terms tied to heat, oxidative, and UV stress (response to heat, regulation of cellular response to heat, response to hydrogen peroxide, response to UV-A), as well as protein quality control (obsolete ubiquitin-dependent ERAD pathway) and stabilization. Taken together, this suggests a cluster focused on proteostasis and cellular protection under stress, with some related transport regulation considerations.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0032387","count":2},{"id":"GO:1900034","count":2},{"id":"GO:2000378","count":2},{"id":"GO:0050821","count":2}]},{"hash":"608496714978198519","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms tied to ribosome production and function, including translation, ribosomal large subunit assembly/biogenesis, cytoplasmic translation, and nuclear export of the large subunit. These strongly point to a shared role in ribosome assembly and protein synthesis. A few terms about retina/optic nerve development and mitotic checkpoints are present but appear less representative for the core theme.","confidence":"High","size":8,"edges":18,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000027","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1649301774049268277","title":"Chromatin regulation and protein methylation","description":"This cluster combines chromatin-associated processes (rDNA heterochromatin formation, DNA-templated transcription) with multiple methylation-related functions (peptidyl-lysine/trimethylation, N-terminal methylation, rRNA methylation) and chaperone regulation (Hsp90 deacetylation, chaperone complex assembly). The shared theme appears to be chromatin-state control coupled with post-translational modifications, especially lysine and rRNA methylation, influencing transcription and protein homeostasis.","confidence":"Medium","size":8,"edges":19,"triangles":15,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0000117","count":2},{"id":"GO:0045348","count":2},{"id":"GO:0018027","count":2}]},{"hash":"1329094053410800477","title":"Developmental angiogenesis and morphogenesis","description":"This cluster\u2019s top GO terms center on angiogenesis and general development, with additional signals for cell-matrix adhesion, myoblast fusion, and axonogenesis, suggesting proteins involved in tissue morphogenesis during development across vascular, muscular, and neural lineages.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0001954","count":4}]},{"hash":"736102314486637569","title":"N-terminal and polyamine acetylation","description":"The top GO terms cluster around N-terminal protein acetylation (N-terminal methionine/serine acetylation) and acetylation of polyamines like spermidine and spermine; a few chromatin-related terms and a mycothiol biosynthetic term appear but are likely secondary noise. Overall, the dominant signal is acetylation-related processes, so this label best reflects the cluster\u2019s core function.","confidence":"Medium","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":8},{"id":"GO:0017196","count":8},{"id":"GO:0006348","count":8},{"id":"GO:0061606","count":8},{"id":"GO:0032918","count":8}]},{"hash":"2270573131717861963","title":"ER\u2013Golgi trafficking and secretion regulation","description":"This cluster is enriched for GO terms centered on ER-to-Golgi transport, ER exit, and Golgi ribbon formation, plus Wnt protein secretion, indicating a cohesive role in the secretory pathway and Golgi organization. Some developmental axis terms likely reflect contextual signaling during development, but the dominant theme ties to secretory trafficking. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0032525","count":1},{"id":"GO:0048042","count":1},{"id":"GO:0061357","count":1},{"id":"GO:0090161","count":1}]},{"hash":"76108761683511424","title":"Mobile genetic elements and proviral integration","description":"The top GO terms center on DNA movement and genome integration (DNA transposition, retrotransposition, DNA integration, proviral latency), with additional signals of viral entry and host\u2013symbiont interactions, suggesting a theme of mobile genetic elements (transposons/retrotransposons) and proviral integration. Some bacterial cell-wall terms appear as peripheral annotations but do not define the core theme. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046329","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0009254","count":2},{"id":"GO:0075732","count":1},{"id":"GO:0006313","count":1}]},{"hash":"304609690740197052","title":"Cardiac signaling and cytoskeletal regulation","description":"The cluster is dominated by intracellular signaling terms (signal transduction, Wnt pathway) and cytoskeletal processes (actin filament bundle assembly), with specific hints toward cardiac function (regulation of SA node action potential) and cell cycle involvement. While there are immune-related terms present (myeloid apoptosis, chemokine production), the core theme centers on signaling networks that coordinate cytoskeletal dynamics and cardiac electrical activity, suggesting a cohesive, albeit broad, signaling/cytoskeletal cluster with cardiac associations.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0010650","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0016055","count":2}]},{"hash":"1310691933133538099","title":"Signaling and developmental regulation","description":"Most terms point to regulation of signaling pathways (JNK cascade, cyclase activity, EGFR signaling, metallopeptidase activity) and developmental processes (inner ear development, stem cell differentiation), with a few cell-cycle related terms. The shared theme is modulation of signaling and developmental programs rather than a single specific process.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:1905050","count":1},{"id":"GO:0046330","count":1},{"id":"GO:0048839","count":1},{"id":"GO:0070849","count":1}]},{"hash":"1106992306455706431","title":"Cerebellar development and neural signaling","description":"Based on the presence of cerebellum-specific terms (cerebellar cortex formation; Bergmann glial cell differentiation) and neural signaling processes (insulin receptor signaling, axon regeneration regulation), this cluster appears enriched for cerebellar neural development and related signaling pathways. Some terms also reflect broader immune or stress responses (T cell signaling, cadmium response), but the cerebellar development signals are the strongest indicators of the cluster's theme. Confidence: Medium","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:0021697","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0060020","count":6}]},{"hash":"1988838909588755371","title":"Sterol and lipid biosynthesis","description":"This cluster's top GO terms cluster around sterol biosynthesis (ergosterol, cholesterol via lathosterol), fatty acid and ether lipid metabolism, and sphingolipid pathways, suggesting a cohesive theme of lipid production and modification. A few terms related to immune or skin biology appear as distant annotations, but the dominant signal is lipid biosynthesis. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0033490","count":2},{"id":"GO:0006696","count":2},{"id":"GO:0080064","count":2}]},{"hash":"1486060498203781804","title":"Mitotic Exit and Nuclear Organization","description":"This cluster is dominated by GO terms related to cell division, the cell cycle, mitotic exit, and nuclear envelope reassembly, along with nucleus organization and related processes. While a couple terms hint at broader morphogenesis, the core signal points to mitosis and post-mitotic nuclear dynamics, justifying a label focused on mitotic exit and nuclear organization.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0008407","count":2},{"id":"GO:0031468","count":1},{"id":"GO:0030447","count":1}]},{"hash":"816843000551038757","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The top GO terms point strongly to ubiquitin-dependent proteolysis (SCF-dependent and general ubiquitin tagging) and protein catabolism, indicating a proteostasis-focused cluster. While other terms touch on stress responses and cell-cycle aspects, the dominant pattern is ubiquitin-proteasome system\u2013driven degradation. High","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0071406","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0060386","count":8},{"id":"GO:0000209","count":8}]},{"hash":"428688458448863869","title":"Developmental Signaling and Differentiation","description":"A set of terms centers on signaling pathways (PI3K/AKT, IGF receptor signaling) and a range of differentiation and morphogenesis processes (muscle differentiation, midbrain morphogenesis, myelination, hematopoiesis, B cell maturation). The common theme is developmentally relevant signaling across tissues, even though individual terms are diverse; thus the cluster appears to reflect broad developmental signaling rather than a single pathway or tissue. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":1},{"id":"GO:0019046","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0031641","count":1},{"id":"GO:0046329","count":1}]},{"hash":"531446208177249568","title":"Actin Cytoskeleton and Mitochondrial Inheritance","description":"This cluster is dominated by actin-centric processes (patch assembly, filament bundle assembly, contractile ring activity) and mitochondrion localization/inheritance, suggesting a core theme of actin-driven cytoskeletal organization coupled with mitochondrial distribution during division, with additional signals related to calcium response and meiotic chromosome movement.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":5},{"id":"GO:0000916","count":5},{"id":"GO:0051654","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0000001","count":5}]},{"hash":"1804624408907828996","title":"Neurite morphogenesis and exocytosis regulation","description":"The cluster shows multiple GO terms tied to neuronal development and function, including dendrite morphogenesis, regulation of axonogenesis, and positive regulation of calcium ion\u2013dependent exocytosis, suggesting a role in neurite growth and synaptic vesicle release. Endocytic recycling and membrane trafficking terms also support a trafficking/neurite context, though a mitotic cell cycle term is less specific. Overall, the dominant theme points to neurite development coupled with exocytosis regulation. ","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0032456","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000186","count":2}]},{"hash":"1810464157074152845","title":"Mitotic proliferation and vesicle trafficking","description":"The Top Terms show strong signals for mitotic cell cycle and cell division, indicating proliferative/cell-cycle involvement, while vesicle trafficking terms (COPII-coated vesicle budding, ER-to-Golgi transport) and cytoskeletal/adhesion-related terms (filopodium assembly, cell spreading) point to secretory/structural processes that support growth and development (brain development, multicellular organism growth). This suggests a coherent theme around cell proliferation combined with vesicle-mediated transport and morphogenesis.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0008283","count":4},{"id":"GO:1900026","count":4}]},{"hash":"559688260967043425","title":"Lysine and rRNA Methyltransferases","description":"The dominant GO terms are methylation-related: lysine methylation of proteins (peptidyl-lysine dimethylation and trimethylation) and N-terminal methylation, as well as rRNA methylation. This points to enzymes that transfer methyl groups to lysine residues and ribosomal RNA, i.e., methyltransferases. The associated chromatin/rDNA terms suggest a link to chromatin modification, though some other terms reflect broader stress responses that are less central to the core function.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0018027","count":4},{"id":"GO:0018013","count":4},{"id":"GO:0031167","count":4},{"id":"GO:0035690","count":3}]},{"hash":"580459716748398789","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The top GO terms cluster around ubiquitination and proteasomal protein catabolism (ubiquitin-dependent protein catabolic process, protein ubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, K48-linked ubiquitination, autoubiquitination). This suggests the proteins function together in tagging substrates with ubiquitin for degradation, a core aspect of the ubiquitin-proteasome system, with a few neuronal signaling-related terms likely reflecting context rather than a separate module.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0016567","count":3},{"id":"GO:1903378","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0070936","count":3}]},{"hash":"680567074205447917","title":"Mitotic cell cycle and developmental gene expression","description":"These proteins are best grouped by their strong association with mitosis: spindle assembly, centrosome separation, and progression through the mitotic cell cycle. Additional GO terms point to developmental processes and transcriptional regulation (multicellular organism development, forebrain development, DNA-templated transcription), suggesting a role in coordinating cell division with developmental gene expression. Some stress-related terms (cadmium response, TGF-beta stimulus) appear but are secondary to the core mitosis/development linkage.","confidence":"High","size":7,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0007100","count":3},{"id":"GO:0071560","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007275","count":2}]},{"hash":"982672627218307401","title":"Proteostasis and signaling regulation","description":"The cluster combines protein turnover signals (ubiquitin-dependent protein catabolic process; glycoprotein catabolic process) with regulators of cellular signaling and trafficking (cellular response to TGF-beta; SMAD-related notes; positive regulation of nuclear export; vacuole fusion regulation) and even development-related terms (maintenance of meristem identity). This suggests a theme around how proteostasis interfaces with signaling and regulatory pathways, rather than a single, tight pathway. ","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0042006","count":1},{"id":"GO:0035970","count":1},{"id":"GO:0060546","count":1},{"id":"GO:0006516","count":1}]},{"hash":"1108341638861336639","title":"Unknown","description":"The set includes terms spanning mitochondrial inheritance, transcription regulation, kinase signaling (activation/regulation of protein kinase activity and JNK cascade), organelle assembly (melanosome), vesicle trafficking (vacuole fusion), cytokinesis, and neuronal development (interneuron precursor migration). This wide dispersion suggests no single cohesive function or pathway dominates the cluster, so a concise, representative label cannot be assigned beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":2},{"id":"GO:0032147","count":1},{"id":"GO:0006351","count":1},{"id":"GO:1902064","count":1},{"id":"GO:0032889","count":1}]},{"hash":"817237221882277213","title":"Cardiac Signaling and Metabolic Regulation","description":"The listed terms show a focus on regulation and signaling, especially around cardiac muscle contraction and calcium handling, transcriptional regulation, Rho signaling, and mitochondrial dynamics under hypoxia. Additional metabolic terms (uracil catabolism, nitrogen utilization) and angiogenesis modulation support a broader regulatory/metabolic cluster rather than a single enzymatic activity. Thus the label captures the cluster as a cardiovascular-regulatory signaling module with metabolic connections.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0086004","count":2},{"id":"GO:1901896","count":2},{"id":"GO:0006468","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1307156825471600576","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046709","count":1},{"id":"GO:0071544","count":1},{"id":"GO:0050992","count":1},{"id":"GO:0015967","count":1},{"id":"GO:0006382","count":1}]},{"hash":"748669427020031853","title":"Growth Signaling and Morphogenesis","description":"The cluster includes terms tied to the mitotic cell cycle and major signaling pathways (MAPK/MAPKK, PI3K-Akt, insulin receptor signaling) along with processes of morphogenesis and neuronal development (dendrite morphogenesis, regulation of axonogenesis) and adhesion-related signaling. This pattern suggests proteins coordinating growth, division, and developmental signaling rather than a single, narrow function.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0000186","count":5},{"id":"GO:0048813","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0051893","count":5}]},{"hash":"1372670396830316965","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0007318","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0008103","count":1}]},{"hash":"480359936497486209","title":"Neurodevelopmental mitosis and spindle dynamics","description":"The top GO terms include neural development (interkinetic nuclear migration, cerebral cortex development, pole cell formation) alongside core mitotic processes (metaphase/anaphase transition, mitotic spindle organization, astral microtubule organization, pronuclear migration). This combination points to proteins involved in neural progenitor cell division and the associated spindle dynamics during brain development, with some terms reflecting broader development. Hence a theme of neurodevelopmental mitosis with spindle regulation.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042386","count":1},{"id":"GO:0022027","count":1},{"id":"GO:0007279","count":1},{"id":"GO:0021987","count":1},{"id":"GO:0035046","count":1}]},{"hash":"2220739474120101746","title":"ER stress response and protein homeostasis","description":"The cluster is enriched for unfolded protein response and ER stress-related processes (response to unfolded protein, translation initiation in response to ER stress) and membrane targeting, suggesting a functional unit centered on protein folding and trafficking in the ER/secretory pathway, with redox balance also involved. An outlier axonemal assembly term is noted but not representative.","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006924","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0031204","count":1},{"id":"GO:1904158","count":1},{"id":"GO:0046825","count":1}]},{"hash":"661517931416575857","title":"Autophagy and organelle turnover","description":"The top terms are dominated by autophagy-related processes (macroautophagy, autophagosome assembly, mitophagy, nucleophagy, and related autophagic pathways), indicating the proteins cluster around autophagic degradation and selective turnover of organelles. A single term for cerebellar neuron development appears incidental, supporting a primary autophagy-centric theme.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0016236","count":1},{"id":"GO:0051697","count":1},{"id":"GO:0044805","count":1},{"id":"GO:0000045","count":1}]},{"hash":"373696020966359312","title":"Translation Machinery and mRNA Decay","description":"The cluster is strongly enriched for translation-related GO terms (translation, translational initiation/termination, positive regulation of translation, and selenocysteine incorporation) and for deadenylation-dependent mRNA decay, indicating core involvement in protein synthesis and mRNA turnover. Secondary terms like glial cell proliferation and response to antibiotic may reflect broader roles of some proteins but do not override the dominant translation/mRNA-processing signal.","confidence":"High","size":7,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0014009","count":3},{"id":"GO:0000288","count":3},{"id":"GO:2000767","count":3},{"id":"GO:0046677","count":3}]},{"hash":"363126783076025409","title":"Spinal motor neuron development and cytoskeleton remodeling","description":"The cluster is dominated by GO terms tied to spinal cord motor neuron development and specification (ventral interneuron, spinal cord motor neuron cell fate, medial motor column differentiation) and is complemented by terms on actin filament organization and exocytosis, suggesting a theme of neuronal differentiation with cytoskeletal and vesicle trafficking dynamics. Some terms appear unrelated (antibiotic biosynthesis, gonad development, glucocorticoid signaling) but they are less represented, and the motor neuron development signal is strongest.","confidence":"High","size":7,"edges":17,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0021521","count":2},{"id":"GO:0045216","count":2},{"id":"GO:0051017","count":2},{"id":"GO:2000324","count":2}]},{"hash":"494039607693881563","title":"Mitochondrial fatty acid and branched-chain amino acid catabolism","description":"The top GO terms cluster around mitochondrial energy production: TCA cycle, fatty acid beta-oxidation, and catabolism of branched-chain amino acids (valine, isoleucine), with dihydrolipoamide metabolism and membrane potential regulation, pointing to coordinated mitochondrial substrate catabolism.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":5},{"id":"GO:0006099","count":4},{"id":"GO:0006635","count":4},{"id":"GO:0006550","count":4},{"id":"GO:0042391","count":3}]},{"hash":"31118083950104364","title":"Unknown","description":"The top GO terms cover diverse processes from carbohydrate and lipid metabolism to redox signaling and broad stress/response pathways, with no single dominant function tying the proteins together. This heterogeneity makes it hard to assign a cohesive, specific label.","confidence":"","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1901159","count":5},{"id":"GO:0033859","count":5},{"id":"GO:0018119","count":5},{"id":"GO:0046370","count":5},{"id":"GO:0019518","count":5}]},{"hash":"1997900065060769935","title":"Unknown","description":"The GO terms span basic metabolism (pentose-phosphate shunt, carbohydrate metabolism, carbon utilization) but also include disparate processes (stomatal development, CO2 response, JNK signaling regulation, fertilization, rRNA modification, spliceosome regulation). There isn't a single coherent biological theme linking these terms for this protein set, so a concise functional label is not supported.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006098","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0015976","count":1},{"id":"GO:2000122","count":1},{"id":"GO:0071244","count":1}]},{"hash":"1216698883231456118","title":"DNA replication and genome maintenance","description":"This cluster centers on core DNA-associated processes: initiation of replication, replication itself, primer formation, recombination, and repair, plus cell division. Some outliers (plasmid/mitochondrial maintenance, splicing) exist but do not override the dominant replication/maintenance theme.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006270","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051260","count":2}]},{"hash":"2230769239080664362","title":"Neural tube and forebrain development","description":"The cluster\u2019s top GO terms are dominated by neural development (forebrain development, neural tube closure) with accompanying embryogenesis signals (multicellular organism development, skeletal system development). Proliferation and transcription (DNA-templated transcription, mitotic cell cycle) support developmental programs, while stress-related terms may be incidental. Overall, the theme is neural development during embryogenesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0030900","count":2}]},{"hash":"1394740896923701198","title":"Cell cycle and nuclear transport regulation","description":"The top GO terms cluster around cell division and meiotic regulation, plus nuclear import, with supporting roles in protein turnover and modification (desumoylation, catabolic regulation) and complex assembly. This suggests a regulatory module coordinating cell cycle progression with protein trafficking and turnover, rather than a single, narrowly defined pathway, so a moderate, representative label fits. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097711","count":2},{"id":"GO:1903538","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0060188","count":2}]},{"hash":"990196021732118896","title":"N-terminal and polyamine acetylation with chromatin regulation","description":"The cluster\u2019s top GO terms cluster around N-terminal acetylation variants (serine, methionine, propionylation) and polyamine acetylation (spermidine, spermine), suggesting a shared theme of acetylation-based regulation. The chromatin-related terms (subtelomeric heterochromatin formation, centromeric cohesion) imply a secondary link to chromatin maintenance and chromosome segregation. A few terms (mycothiol biosynthetic process, leaf formation) appear less directly connected, possibly reflecting species-specific roles. Overall, the label captures the dominant acetylation signaling theme with a chromatin regulation angle.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":7},{"id":"GO:0017196","count":7},{"id":"GO:0006348","count":7},{"id":"GO:0061606","count":7},{"id":"GO:0032918","count":7}]},{"hash":"1359428242832730488","title":"Unknown","description":"The top GO terms span lipid metabolism (prostaglandin and bile acid biosynthesis), stress and response processes, development (female gonad, tongue muscle differentiation), cell cycle regulation, and vascular adhesion, with no single cohesive function tying the proteins together. This diversity makes a concise, representative label difficult, so Unknown is appropriate.","confidence":"","size":7,"edges":9,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":4},{"id":"GO:0035902","count":3},{"id":"GO:2001037","count":3},{"id":"GO:1900087","count":3},{"id":"GO:0010164","count":3}]},{"hash":"581202588899807870","title":"Actin nucleation and lamellipodium formation","description":"The GO terms are dominated by actin-related processes: actin nucleation (including Arp2/3), lamellipodium assembly, actin filament network formation, and related polymerization/capping activities, indicating cytoskeletal remodeling as the central theme of the cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":1},{"id":"GO:0085014","count":1},{"id":"GO:0048669","count":1},{"id":"GO:0010592","count":1},{"id":"GO:0030048","count":1}]},{"hash":"1734688944152608989","title":"Neurodevelopment and Synaptic Signaling","description":"This cluster centers on neuronal development and synaptic modulation: dendritic spine remodeling, neurotransmitter receptor transport to the postsynaptic membrane, and GTPase/Rho signaling involved in cytoskeletal dynamics, along with growth factor signaling (IGF and BMP) that influence neural development. While some terms are broader, the core theme ties to neuronal growth, connectivity, and synaptic regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0098887","count":1},{"id":"GO:0098886","count":1},{"id":"GO:0032760","count":1},{"id":"GO:0021816","count":1}]},{"hash":"1569982249870704576","title":"NF-\u03baB\u2013mediated anti-angiogenic signaling regulators","description":"This cluster is pulled by GO terms tying NF-\u03baB pathway control (I-kappaB phosphorylation) to anti-angiogenic processes (negative regulation of angiogenesis and VEGF signaling). Additional terms suggest regulation of protein trafficking and raft-associated signaling, which can modulate these pathways. Mitochondrial and ECM terms are present but less cohesive with the main theme, so the core label emphasizes NF-\u03baB\u2013driven anti-angiogenic signaling.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0007252","count":2},{"id":"GO:0016525","count":2},{"id":"GO:1900747","count":2},{"id":"GO:0010918","count":1}]},{"hash":"826939250409257543","title":"Translation machinery and mRNA processing","description":"The cluster is dominated by GO terms tied to translation and associated RNA processes (translation, cytoplasmic translation, initiation, termination, tRNA modification, selenocysteine incorporation) and mRNA turnover, indicating a core theme around protein synthesis machinery and RNA metabolism. The antibiotic response term may reflect translation-targeting drugs, supporting this interpretation. ","confidence":"High","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0051301","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0000288","count":2},{"id":"GO:2000767","count":2}]},{"hash":"1942592037521685075","title":"Ubiquitin-Proteasome-Mediated Degradation and Cell Cycle Regulation","description":"Dominant signals point to ubiquitin-proteasome\u2013mediated protein degradation and ubiquitination, especially tied to mitotic cell cycle control and DNA damage checkpoints; additional terms reflect stress responses.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0042787","count":4},{"id":"GO:0031571","count":4},{"id":"GO:1902916","count":4},{"id":"GO:0000278","count":3}]},{"hash":"1301375408051061446","title":"Unknown","description":"The proteins show a mix of diverse biosynthetic and metabolic GO terms (menaquinone biosynthesis, siderophore biosynthesis, long-chain fatty acid metabolism/import, nonribosomal peptide biosynthetic activation) alongside plant-specific seed terms (seed germination, seed coat development) and other disparate processes, with no single coherent function linking all terms. This makes it not possible to assign a concise, representative label.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0001676","count":2},{"id":"GO:0010030","count":2},{"id":"GO:0019654","count":2},{"id":"GO:0010214","count":2}]},{"hash":"1579797991293841316","title":"Developmental signaling and patterning","description":"This cluster centers on developmental processes and signaling pathways, with terms for heart development, anterior/posterior pattern specification, and responses to TGF-beta, Rac/Rho signaling. Immune-related terms (B cell affinity maturation, IL-4 production) are present but less central, suggesting a primary theme of signaling during development and tissue patterning rather than a single immune or neural function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0071560","count":2},{"id":"GO:0002344","count":2},{"id":"GO:0098761","count":2},{"id":"GO:0007264","count":2}]},{"hash":"867927919443646031","title":"Mitosis-driven nuclear envelope reassembly and cytokinesis","description":"The top GO terms center on nuclear membrane reassembly, exit from mitosis, nucleus organization, abscission, and cell division, indicating a core role in mitotic exit and cytokinesis. Related terms about vesicle formation, membrane fission, and Golgi protein retention suggest concurrent membrane remodeling and trafficking during this phase. Overall, these functions cohere around coordinating chromosome segregation with nuclear envelope reformation and final cell separation.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031468","count":2},{"id":"GO:0030447","count":2},{"id":"GO:0010458","count":2},{"id":"GO:0006997","count":2},{"id":"GO:0009838","count":2}]},{"hash":"2115974243236853177","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for translation and ribosome biogenesis (translation, ribosomal large subunit assembly, maturation of SSU-rRNA), indicating a core involvement in protein synthesis. The remaining terms reflect broader housekeeping metabolism and redox processes that are less central to the cluster\u2019s main function.","confidence":"High","size":7,"edges":18,"triangles":22,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000027","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0042391","count":1},{"id":"GO:0051068","count":1}]},{"hash":"816609708583901106","title":"Translation machinery and mRNA regulation","description":"The cluster shows strong enrichment for translation-related GO terms (cytoplasmic and mitochondrial translation, translational termination, and positive regulation of cytoplasmic translation) plus mRNA decay, indicating a core theme around protein synthesis and mRNA turnover; peripheral terms like viral genome replication and antibiotic response likely reflect stress or interaction context rather than core function.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0046677","count":6},{"id":"GO:0006412","count":5},{"id":"GO:0006415","count":4},{"id":"GO:0019079","count":3},{"id":"GO:0002181","count":3}]},{"hash":"616476422896134887","title":"Ribosome maturation and translation","description":"This cluster is dominated by GO terms related to protein synthesis: translation, translational initiation, and rRNA maturation/pseudouridine synthesis, pointing to ribosome biogenesis and the protein synthesis machinery. While a couple of terms touch on MAPK signaling and development, the strongest functional signal centers on ribosome assembly and translation.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006413","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0046330","count":1}]},{"hash":"1646048727991681732","title":"Nuclear transcription regulation and transport","description":"The GO terms are dominated by regulation of DNA-templated transcription and transcriptional activity, with supporting signs of nuclear trafficking (Ran signaling, ribosomal subunit export from the nucleus, transcription factor import). A peripheral plant polarity term and intraciliary transport suggest some related, broader transport roles, but the core theme appears centered on transcription control coupled with nuclear transport processes.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0006351","count":1},{"id":"GO:0006353","count":1},{"id":"GO:0009944","count":1},{"id":"GO:0000055","count":1}]},{"hash":"1844153687808371274","title":"Trafficking and Exocytosis Regulation","description":"The observed GO terms emphasize positive regulation of Golgi organization, protein localization to the plasma membrane, endosome transport, and exocytic processes (acrosome reaction, neurotransmitter release), all pointing to control of membrane trafficking and secretion. Although immune-related terms are present, the core theme appears to be regulatory control over trafficking and exocytosis, with neuronal terms supporting a neural exocytosis angle. Thus this label captures the shared function across the cluster.","confidence":"Medium","size":7,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051024","count":1},{"id":"GO:1903358","count":1},{"id":"GO:2000463","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0010701","count":1}]},{"hash":"1839940242825633729","title":"Mitotic cell cycle and chromosome segregation","description":"The top GO terms cluster around mitosis and cell-cycle control (G2/M transition, mitotic cell cycle, chromosome segregation, exit from mitosis) and proteasomal protein degradation via SCF, plus related chromatin/heterochromatin maintenance. Despite one viral-process term, the dominant signal is regulation of mitosis and genome maintenance, suggesting this group functions in mitotic progression and chromosome handling.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0070911","count":5},{"id":"GO:0000086","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0007059","count":5}]},{"hash":"713897557256296739","title":"Neural development and axon guidance","description":"This cluster is dominated by GO terms related to neural and brain development, neuron growth and axon guidance, including retinal and visual pathway terms, suggesting a core function in nervous system and sensory development (with a few peripheral terms like skeletal muscle or thyroid development).","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030516","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0048839","count":2},{"id":"GO:0021549","count":2}]},{"hash":"300731277164001598","title":"Cellular Stress and Metabolic Response","description":"The proteins show enrichment for stress-related GO terms (UV protection, xenobiotic stimulus, cadmium ion) and inflammatory signaling (NF-kappaB activity), alongside metabolic/signaling processes (aerobic respiration, insulin response). The recurring themes suggest a cluster involved in sensing/detoxifying stress and coordinating metabolic responses, despite no observed network edges. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0009650","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0032868","count":2}]},{"hash":"650333561395571064","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"These terms cluster around actin-driven structures (lamellipodium, filopodium, microvillar bundles), cell junctions, and apical/basal polarity, plus wing-hair organization and spermatid morphogenesis, indicating coordinated actin remodeling during development and epithelial organization.","confidence":"High","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010592","count":1},{"id":"GO:1900107","count":1},{"id":"GO:0030034","count":1},{"id":"GO:0035317","count":1},{"id":"GO:0070511","count":1}]},{"hash":"1777770346379079765","title":"Dendrite Development and Synaptic Signaling","description":"The cluster prominently features terms tied to neuronal development and synaptic function, including excitatory postsynaptic potential, dendrite morphogenesis, hippocampus development, and regulation of signaling pathways (ERK/JNK and Wnt). While a couple of general terms appear, the overall theme points to neuronal differentiation and synaptic signaling rather than core cell-cycle processes. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031647","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1875008519533625596","title":"Synaptic signaling regulation","description":"Top GO terms point to modulation of neuronal signaling, including positive regulation of dopamine receptor signaling and negative regulation of excitatory postsynaptic potential, suggesting a core theme of synaptic activity control. Additional terms for Rap and Wnt signaling and protein stability indicate broader intracellular signaling coordination that can influence protein turnover and membrane dynamics. Some terms relate to organelle interactions and membrane events (mitochondrion-ER tethering, vacuole fusion), suggesting links between signaling and organelle regulation. Together, these terms converge on a function of synaptic signaling regulation with supporting cellular processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060161","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0031647","count":3},{"id":"GO:0032486","count":3},{"id":"GO:0045792","count":3}]},{"hash":"2235047239995634606","title":"Cytokinesis Vesicle Trafficking and SNARE Regulation","description":"The terms point to membrane trafficking and fusion processes involved in cell division: vesicle delivery for membrane addition at the cytokinesis site, SNARE complex disassembly, and Rab-mediated signaling, with ER-mitochondria tethering supporting organelle coordination. A metabolic note (negative regulation of oxidative phosphorylation) aligns with cellular energy regulation during division, while some terms appear peripheral but do not override the central trafficking/cytokinesis theme.","confidence":"Medium","size":6,"edges":10,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032889","count":3},{"id":"GO:0007107","count":3},{"id":"GO:0090324","count":3},{"id":"GO:1990456","count":3},{"id":"GO:0000278","count":3}]},{"hash":"275862419110115561","title":"Gamete maturation and early embryogenesis","description":"The top GO terms center on reproductive maturation (sperm capacitation, oocyte maturation) and embryogenesis (gastrulation), indicating a cluster tied to gamete function and early developmental processes. Some terms are broader or obsolete, but the predominant theme points to reproduction and early development, with supportive references to cell proliferation and microtubule dynamics.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0048240","count":3},{"id":"GO:0007369","count":3}]},{"hash":"745839917767303519","title":"Vesicle trafficking and organelle tethering in mitosis","description":"GO terms cluster around membrane fusion events (vacuole fusion, cytokinesis membrane addition), ER\u2013mitochondrion tethering, and Rab-mediated signaling, pointing to vesicle trafficking and organelle contact as a central theme during cell division. Additional terms reference mitotic cell cycle and oxidative phosphorylation regulation, reinforcing a mitosis-associated energy and membrane-dynamics program. A few terms touch neural processes, suggesting broader signaling roles beyond a single pathway.","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032889","count":5},{"id":"GO:0007107","count":5},{"id":"GO:0090324","count":5},{"id":"GO:1990456","count":5},{"id":"GO:0000278","count":5}]},{"hash":"715724327294663140","title":"Stress-response and signaling regulators","description":"The top GO terms show widespread negative regulation across several pathways (mitochondrial fusion, glucokinase activity, store-operated Ca2+ channels, endocytosis, transcription by RNA Pol II, interferon signaling, and responses to toxins). This suggests these proteins act as general regulatory modulators that tune cellular stress responses and signaling networks rather than performing a single biochemical function. The label reflects the broad regulatory role implied by the cluster.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010637","count":6},{"id":"GO:0006357","count":6},{"id":"GO:0017085","count":6},{"id":"GO:0097237","count":6},{"id":"GO:0051865","count":6}]},{"hash":"2056440707307245286","title":"Protein quality control and folding","description":"The top GO terms point to cytoplasmic protein quality control by the ubiquitin-proteasome system, chaperone-mediated protein complex assembly, and protein folding, suggesting a proteostasis-focused cluster. A few terms related to transcription elongation, microtubule organization, and ROS/selenium stress appear, but the dominant signal is cytosolic protein homeostasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071629","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0043622","count":1},{"id":"GO:0007021","count":1}]},{"hash":"2081505705961842004","title":"Cardiac and cytoskeletal signaling","description":"The dominant GO terms cluster around heart rate regulation, heart contraction, store-operated calcium channel activity, and actin cortex assembly, pointing to calcium-dependent signaling that coordinates cardiac and cytoskeletal dynamics. Additional terms on VEGF signaling and muscle differentiation support a broader vascular/muscle signaling theme, though some terms (e.g., phototransduction) are peripheral. Overall, a coherent theme is calcium-driven signaling governing cardiac and cytoskeletal function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030948","count":6},{"id":"GO:2001015","count":3},{"id":"GO:0002027","count":3},{"id":"GO:1901339","count":3},{"id":"GO:0000147","count":3}]},{"hash":"1091826270225745682","title":"COPII ER export","description":"GO terms emphasize COPII vesicle coating and budding, ER organization, and exit-site\u2013associated protein transport, indicating COPII-mediated export from the endoplasmic reticulum and vesicle trafficking toward the Golgi.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":1},{"id":"GO:0007029","count":1},{"id":"GO:0048208","count":1},{"id":"GO:0090114","count":1},{"id":"GO:0016192","count":1}]},{"hash":"981453426264676467","title":"Fungal cell wall biosynthesis and glycosylation","description":"Cluster enriched for fungal-type cell wall biogenesis, mannoprotein biosynthesis, and glycosylation processes (N-linked glycosylation, galactomannan/galactoglucomannan, xyloglucan biosynthesis). This points to proteins involved in assembling and modifying the fungal cell wall and related polysaccharides, consistent with cell wall biosynthesis in fungi.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000032","count":2},{"id":"GO:0009272","count":2},{"id":"GO:0000917","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0010192","count":1}]},{"hash":"49934631299942088","title":"Ion Channel Organization and Membrane Excitability","description":"The GO terms point most strongly to ion-channel assembly and membrane excitability, with items like voltage-gated calcium channel complex assembly, neurotransmitter-gated ion channel clustering, potassium import regulation, and cardiac action potential depolarization. While some terms (epithelial polarity, mRNA processing, JNK regulation, immunological synapse formation) are more general or peripheral, the core signal is around ion-channel organization and membrane excitability.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0019634","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0046328","count":1}]},{"hash":"2174831753770199866","title":"Spliceosome-mediated mRNA splicing and processing","description":"The main GO signals are splicing-related (mRNA splicing via spliceosome, alternative splicing, splicing regulation) and associated RNA processing, with minor gonad development signals likely noise; thus the cluster centers on spliceosome-driven RNA maturation.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1903586","count":1}]},{"hash":"12427970627091364","title":"Nuclear RNA processing and chromatin organization","description":"The cluster is enriched for spliceosome and RNA processing terms (mRNA cis splicing via spliceosome, spliceosomal snRNP assembly, tRNA processing) and chromatin-related processes (histone mRNA metabolic process, pericentric heterochromatin formation, import into nucleus), indicating a cohesive nuclear function linking RNA processing with chromatin regulation, with some environmental terms likely serving as noise.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0070317","count":3},{"id":"GO:0009414","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1943310377979321196","title":"Immune cell differentiation and actin remodeling","description":"The cluster prominently features hematopoietic/immune differentiation terms (T cell differentiation in thymus; positive regulation of alpha-beta T cell differentiation; granulocyte differentiation; hematopoietic stem cell proliferation) along with actin cytoskeleton dynamics terms (lamellipodium assembly; actin filament movement; actin filament bundle assembly). This suggests proteins involved in immune lineage development that also regulate cytoskeletal remodeling necessary for cell migration and differentiation. Some terms are peripheral or obsolete, but the core theme remains coherent.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":1},{"id":"GO:0033077","count":1},{"id":"GO:0046638","count":1},{"id":"GO:0030851","count":1},{"id":"GO:1903955","count":1}]},{"hash":"302696225660396926","title":"Retina and Embryonic Development","description":"Based on GO terms, this cluster centers on developmental processes, with retina development in camera-type eye as the most represented term (GO:0060041), and embryonic organ development (GO:0010255, GO:0035264). Additional terms touch on growth, cell-cycle regulation during development, and cytoskeletal remodeling and proteolysis, all of which can accompany morphogenesis and organogenesis. Together, these terms suggest a cohesive theme of eye-related and embryonic development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0070317","count":2},{"id":"GO:0010255","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0048568","count":2}]},{"hash":"2259937890751050130","title":"Unknown","description":"The top terms span ribosomal export, cell division, heart development, filopodium dynamics, synaptic transmission, cell spreading, and even viral replication, with little overlap suggesting a single cohesive function. The signals are too diverse to define a specific, representative cluster label, so an Unknown label with None confidence is appropriate.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0045792","count":2}]},{"hash":"2156945548160108463","title":"Lipid and Steroid Biosynthesis","description":"The terms point to lipid-centric metabolism: poly-hydroxybutyrate, mycolic acid, and very long-chain fatty acid biosynthesis, plus sphinganine metabolism, all indicating fatty acid/lipid biosynthesis. Additional terms for retinal/retinol and C21-steroid hormone metabolism suggest retinoid and steroid pathways are also represented. Despite some obsolete entries, the overarching pattern is lipid and steroid biosynthesis/metabolism, making this a cohesive cluster for those functions.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":4},{"id":"GO:0055114","count":4},{"id":"GO:1902987","count":3},{"id":"GO:0071768","count":3},{"id":"GO:0042574","count":3}]},{"hash":"2279147512428108352","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048455","count":1},{"id":"GO:0015995","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0042245","count":1}]},{"hash":"1367522228585679018","title":"Unknown","description":"The GO terms span antibiotic biosynthesis, ubiquitin-dependent protein catabolic processes, developmental processes in multiple tissues (distal tubule morphogenesis, skeletal muscle differentiation/tissue development, nervous system development), circadian rhythm regulation, immune germinal center formation, viral latency release, and swimming. This wide diversity provides no single cohesive function to anchor a concise label, so a clear cluster name cannot be derived beyond Unknown.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0072156","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0007399","count":1}]},{"hash":"598384482847395297","title":"Cell Division and Translation Initiation Core","description":"Dominant signals are cell-cycle related\u2014DNA replication initiation and mitotic chromosome condensation\u2014along with transcription and translation initiation, suggesting a core cell division and gene-expression module; the antibiotic response and chromatin-related terms are peripheral.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1090092287960750151","title":"DNA Damage Response and CDK Regulation","description":"The cluster is enriched for GO terms related to regulation of cyclin-dependent protein serine/threonine kinase activity and its negative regulation, plus an intrinsic apoptotic signaling pathway in response to DNA damage. This points to involvement in DNA damage response and cell-cycle control via CDK activity modulation, with apoptosis as a downstream outcome. Some terms (neuron migration, keratinization, Golgi reassembly) are less directly related and may reflect broader cellular processes captured in the dataset.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000079","count":2},{"id":"GO:0071901","count":2},{"id":"GO:0008630","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0046827","count":2}]},{"hash":"1793511632160238091","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000466","count":2},{"id":"GO:1903955","count":2},{"id":"GO:1903146","count":2},{"id":"GO:0000463","count":2}]},{"hash":"1911808993669232467","title":"TNF signaling and oxidative detoxification","description":"These proteins are annotated with a TNF-mediated signaling pathway and with cellular oxidant detoxification, implying roles in inflammatory signaling and redox protection. The shared themes point to a stress-responsive cluster rather than a single enzymatic function, justifying a label that acknowledges both inflammatory signaling and antioxidant defense.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":1},{"id":"GO:0098869","count":1}]},{"hash":"1910836564037419375","title":"Cell Signaling and Cytoskeletal Dynamics","description":"The terms point to intracellular signaling and pathway regulation (intracellular signal transduction, Wnt signaling, electrical coupling) with one term for actin filament assembly, indicating a shared theme of signal\u2011driven control that also interfaces with the cytoskeleton.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010650","count":1},{"id":"GO:0051017","count":1},{"id":"GO:0033028","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0098907","count":1}]},{"hash":"1375569251189304902","title":"Unknown","description":"There are no GO terms or functional signals to unify these proteins, so a common theme cannot be inferred despite their interconnections.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1430511701168236966","title":"Sperm acrosome reaction and calcium signaling regulation","description":"The terms point to fertilization-related signaling: regulation of the acrosome reaction, calcium transport and store-operated calcium entry, GPCR-mediated acetylcholine signaling, and germ cell proliferation. Together these suggest a module of proteins that modulate acrosome exocytosis and calcium-dependent signaling during male germ cell function. ","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060046","count":1},{"id":"GO:0090281","count":1},{"id":"GO:1900004","count":1},{"id":"GO:0002176","count":1},{"id":"GO:0007213","count":1}]},{"hash":"797935640189880964","title":"Angiogenesis and Angiotensin Maturation","description":"The top GO terms suggest a vascular-development theme, with direct mentions of angiogenesis and angiotensin maturation, complemented by broader developmental processes like multicellular development and cell differentiation. While there are some terms outside this theme (mitochondrial electron transport, antigen processing), the cluster appears to be driven mainly by vascular growth and peptide maturation functions, making this a reasonable overarching label.","confidence":"Low","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006509","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0002005","count":1}]},{"hash":"703326323853837685","title":"Organellar protein import and heme biosynthesis","description":"Most top GO terms point to import of proteins into organelles (mitochondrial matrix and chloroplast stroma) and insertion into mitochondrial inner membrane, plus heme biosynthesis, which together suggest a cluster of proteins involved in organelle targeting/assembly and related biosynthetic processes. Some outlier terms (drug/antibiotic biosynthesis, transcription initiation) may reflect annotation noise or broader associations. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0006783","count":2},{"id":"GO:0000002","count":1},{"id":"GO:0045037","count":1},{"id":"GO:0032094","count":1}]},{"hash":"1750665942608992117","title":"Stress-Responsive Transcription and Translation","description":"This cluster mixes transcription-related terms (DNA-templated transcription and termination, antitermination) with translation and ribosome biogenesis, alongside stress-related GO terms (amino acid starvation response, stress-regulated translational initiation) and antibiotic response, suggesting a group of proteins that coordinate gene expression at both transcriptional and translational levels under stress and antibiotic challenge, with occasional signaling involvement (e.g., JNK cascade).","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006353","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1393372707047673327","title":"Developmental Differentiation and Morphogenesis","description":"This cluster\u2019s top GO terms center on development across multiple tissues (osteoblast/bone formation, mesodermal differentiation, nephron and enamel development) plus supporting processes like cell adhesion, epithelial integrity, exosome endocytosis, and cholesterol response. The diversity of tissue contexts suggests a broad developmental/morphogenetic theme rather than a single pathway, and the zero-edge connectivity indicates these proteins may participate in multiple, dispersed developmental roles rather than a cohesive, tight module.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033690","count":1},{"id":"GO:0048333","count":1},{"id":"GO:0035160","count":1},{"id":"GO:0072006","count":1},{"id":"GO:2001237","count":1}]},{"hash":"389895363998414562","title":"Aminoacyl-tRNA Synthetases and Translational Fidelity","description":"Dominant signals are translation and tRNA charging activities, with multiple aminoacyl-tRNA synthetases for Ile, Val, Met, Cys, and Leu, and a term for regulation of translational fidelity, making this label apt. A mycothiol biosynthetic signal exists but does not define the core theme.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0010125","count":2},{"id":"GO:0006428","count":2},{"id":"GO:0006438","count":2},{"id":"GO:0006450","count":2}]},{"hash":"888430435677999187","title":"Ribosome biogenesis and translation","description":"The cluster\u2019s top GO terms are dominated by translation and ribosome-related processes (translation, translational initiation, ribosomal subunit export from nucleus, and ribosomal subunit biogenesis), indicating a core function in protein synthesis machinery. The additional terms (iron ion transport, cell cycle-related) are sparse and likely secondary or incidental. Thus, the group appears to represent ribosome assembly and translation activities.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0000055","count":1},{"id":"GO:0015684","count":1},{"id":"GO:0042274","count":1}]},{"hash":"2209018778923653401","title":"Telomere maintenance and telomeric region localization","description":"This cluster is dominated by telomere-related processes: multiple proteins linked to telomere maintenance, telomerase regulation, telomere capping, and localization to telomeric regions, with supporting post-translational modifications such as ADP-ribosylation and ubiquitination that modulate telomere-associated proteins. A few non-telomere terms (e.g., Wnt signaling) are present but do not override the telomere-centric theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0070213","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0070212","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1767709223094661735","title":"Developmental tissue morphogenesis","description":"The GO terms center on morphogenesis and tissue development across multiple organs (anterior midgut invagination, imaginal disc-derived leg morphogenesis, pericardium and midbrain morphogenesis), plus related processes like M-band muscle localization and vascular permeability, suggesting a shared theme of developmental tissue formation and organization.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":1},{"id":"GO:0007375","count":1},{"id":"GO:0036309","count":1},{"id":"GO:0007480","count":1},{"id":"GO:0060124","count":1}]},{"hash":"1783629561862939773","title":"N-terminal acetylation machinery","description":"The cluster shows strong enrichment for GO terms related to N-terminal acetylation (N-terminal amino acid, methionine/serine acetylation, propionylation, spermidine/spermine acetylation), indicating involvement in N-terminal modification pathways. While a few chromatin-related and plant-development terms appear, the dominant theme is acetylation of protein N-termini, consistent with NAT-like or N-terminal acetyltransferase activity.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":6},{"id":"GO:0017196","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0006474","count":6},{"id":"GO:0061606","count":6}]},{"hash":"702692536957807915","title":"DNA Repair and Chromatin Regulation in Mitosis","description":"This cluster centers on DNA damage response and chromatin maintenance during the cell cycle, highlighted by mitotic (G2/M) progression terms, DNA double-strand break processing, and global genome nucleotide-excision repair, along with subtelomeric heterochromatin formation, telomere silencing, and histone methylation regulation; it is reinforced by ubiquitin-proteasome\u2013mediated protein turnover and protein quality control, indicating coordinated DNA repair, chromatin state maintenance, and mitotic control.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043951","count":6},{"id":"GO:0031939","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0006348","count":6},{"id":"GO:0031146","count":6}]},{"hash":"722973795503685020","title":"Sterol and Fatty Acid Biosynthesis","description":"The top GO terms are dominated by lipid metabolism: ergosterol biosynthesis, cholesterol biosynthesis via lathosterol, and fatty acid biosynthetic processes. While some mitochondrial targeting and obsolete terms are present, the consistent themes point to enzymes involved in building sterols and fatty acids, suggesting a lipid biosynthesis cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0035754","count":1},{"id":"GO:0006675","count":1}]},{"hash":"37666614787919292","title":"Mitotic DNA Repair and Proteostasis","description":"These proteins show a cohesive theme around DNA damage response during the cell cycle, including DNA double-strand break processing and global genome NER, a G2/M transition role, chromatin regulation near telomeres, and ubiquitin\u2013proteasome\u2013mediated protein turnover. The combination suggests coordinated DNA repair with proteostasis during mitosis.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043951","count":5},{"id":"GO:0031939","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0031146","count":5}]},{"hash":"955624813359259757","title":"Stress-Driven Chromatin Remodeling","description":"The top GO terms span cellular stress responses (amino acid starvation, muscle stretch, ER stress\u2013related apoptosis) and chromatin dynamics (chromatin assembly, nucleosome disassembly, histone modification), suggesting a theme of chromatin remodeling linked to stress signaling. Given the small cluster size and some obsolete terms, the connection is plausible but not definitive.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0006335","count":1},{"id":"GO:0006337","count":1}]},{"hash":"2028673126120478115","title":"Actin cytoskeleton dynamics and mitochondrial inheritance","description":"This cluster is dominated by actin-related processes (cortical patch assembly, actin filament bundle assembly, contractile ring contraction) with concurrent signals for mitochondrion localization/inheritance and muscle-related adaptation, suggesting a theme of cytoskeletal remodeling coupled to organelle distribution, even though a few chromatin-related terms are present.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0000147","count":2},{"id":"GO:0000916","count":2},{"id":"GO:0051654","count":2},{"id":"GO:0051017","count":2}]},{"hash":"1683434475052879147","title":"Peroxisome Biogenesis and Protein Import","description":"The top GO terms cluster around peroxisome biology: protein import into peroxisome membrane, peroxisome inheritance, membrane biogenesis, fission, and ER-dependent peroxisome organization, indicating a cohesive role in peroxisome assembly and maintenance and associated protein trafficking. Some minor terms (lipid-binding regulation, protein stabilization, serine phosphorylation) are present but do not redefine the main theme. Confidence reflects a strong, coherent functional grouping to peroxisomes.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045046","count":1},{"id":"GO:0045033","count":1},{"id":"GO:0032527","count":1},{"id":"GO:0016557","count":1},{"id":"GO:0016559","count":1}]},{"hash":"2237388812392600112","title":"RNAi and miRNA Biogenesis","description":"The top GO terms cluster around RNA interference and microRNA processing (regulatory ncRNA-mediated post-transcriptional gene silencing; primary miRNA processing; dsRNA to siRNA in RNA interference), indicating a core function in small RNA pathways and gene silencing. Some terms like face morphogenesis or pattern formation are less related and may reflect annotation noise, but the dominant signal is RNA silencing machinery.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1},{"id":"GO:0050829","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0097150","count":1},{"id":"GO:0033168","count":1}]},{"hash":"1068330383358850396","title":"Regulation of synaptic vesicle cycling","description":"Based on GO terms related to excitatory synaptic transmission and vesicle trafficking (exocytosis/endocytosis, recycling, EPSP regulation), the cluster appears to represent regulation of synaptic vesicle cycling and neurotransmitter release at excitatory synapses. A few development terms (substantia nigra development) may reflect tissue context rather than a separate function. Overall, the dominant signal is presynaptic vesicle regulation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090394","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0032456","count":4},{"id":"GO:0035690","count":4}]},{"hash":"1100243605927104778","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"Most prominent terms point to ubiquitin-dependent proteolysis (SCF complex) and polyubiquitination, coupled with cell division and replication initiation. Additional hints from circadian regulation and metal stress imply proteostasis links to clock proteins and stress responses. Thus, the cluster seems to reflect ubiquitin-proteasome\u2013driven regulation of the cell cycle (and related processes).","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0042752","count":4}]},{"hash":"1405072929611408485","title":"Signaling Pathway Regulators","description":"The top GO terms point to involvement in multiple signaling pathways (NOD2 signaling, NF-kappaB regulation, Wnt signaling) and regulation of kinase activity, with some terms touching cell communication and cytoskeletal organization. A few entries also reference cardiac electrical activity, suggesting broader roles in signaling and cellular communication rather than a single pathway. This mix supports labeling the cluster as regulators of signaling pathways rather than a specific process.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0071901","count":2},{"id":"GO:0010650","count":1},{"id":"GO:0051017","count":1}]},{"hash":"1940943382562479638","title":"Developmental growth signaling and myoblast fusion","description":"The GO terms point to morphogenesis and growth regulation, including myoblast fusion (muscle formation), axonogenesis (neural development), cell-matrix adhesion, and growth factor receptor signaling (PDGF/VEGF). The lack of interactions and presence of some obsolete terms make the signal moderate; the label captures the shared theme but is tentative.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0048638","count":1},{"id":"GO:0007520","count":1},{"id":"GO:0021952","count":1}]},{"hash":"1014687817863107312","title":"Redox Balance and Detoxification","description":"This cluster is dominated by redox-related terms\u2014oxidation-reduction, cellular redox homeostasis, and cellular oxidant detoxification\u2014pointing to proteins involved in maintaining redox balance; a few development-related terms appear peripherally and do not define the core function.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0030416","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2},{"id":"GO:2000255","count":2}]},{"hash":"1937126704036868875","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":2},{"id":"GO:0060416","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0032094","count":1},{"id":"GO:1903718","count":1}]},{"hash":"1419701305708028933","title":"RNA Splicing Regulation and mRNA Processing","description":"Top GO terms cluster around spliceosome-mediated splicing regulation (positive/negative regulation, alternative splicing) and broader mRNA processing/stability, suggesting the proteins function in RNA maturation and splicing control. Thus the label reflects the core theme of splicing regulation and mRNA processing in this cluster.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0034462","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1903586","count":1}]},{"hash":"59565497515691251","title":"Unknown","description":"Top Terms are empty, so I cannot identify a shared function or theme for these 5 proteins. The network is modestly interconnected, but without GO annotations, any specific label would be speculative.","confidence":"","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"439506614207357104","title":"Unknown","description":"Top GO terms are highly diverse (developmental processes in muscle, brain, bladder; axis specification; DNA replication/repair; heat shock response; energy metabolism), with no clear shared function or pathway linking the five proteins. There are no edges or coherent connectivity to support a specific functional label, so the cluster remains Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001015","count":1},{"id":"GO:1900222","count":1},{"id":"GO:0060157","count":1},{"id":"GO:0008069","count":1},{"id":"GO:0006273","count":1}]},{"hash":"774301486173903529","title":"Nuclear RNA Processing and Chromatin Regulation","description":"This cluster's GO terms strongly center on nuclear RNA processing (mRNA splicing via spliceosome, spliceosomal snRNP assembly, tRNA processing) and chromatin-related activities (histone mRNA metabolism, pericentric heterochromatin formation, nuclear import). Although a few terms touch on plant stress responses and cell-cycle regulation, the dominant theme is nuclear RNA processing together with chromatin dynamics, which best explains their grouping.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":1},{"id":"GO:0042633","count":1},{"id":"GO:0070317","count":1},{"id":"GO:0009414","count":1},{"id":"GO:0045292","count":1}]},{"hash":"1211560538993565217","title":"RNA Pseudouridine Synthesis","description":"The top GO terms point to pseudouridine synthesis across multiple RNA types (rRNA, mRNA, snRNA, tRNA), indicating the cluster reflects the RNA modification machinery, specifically pseudouridine synthases. A few unrelated terms appear, but the dominant signal is consistent with RNA pseudouridylation. This justifies naming the cluster around RNA pseudouridine synthesis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000455","count":1},{"id":"GO:1990481","count":1},{"id":"GO:0031120","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0060017","count":1}]},{"hash":"1134567072004322692","title":"RNA processing and ribosome biogenesis","description":"The cluster is dominated by GO terms related to spliceosome-mediated mRNA splicing and small-subunit processome assembly, plus ribosome biogenesis, pointing to nuclear RNA processing and ribosome assembly as the shared function. Some terms are unrelated or obsolete, but the core theme centers on RNA processing and ribosome production.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0008069","count":1},{"id":"GO:0034462","count":1}]},{"hash":"126828765504314355","title":"Innate Immune Sensing and Inflammatory Signaling","description":"Top GO terms center on innate immune sensing and inflammatory signaling, including TLR7 and TLR10 signaling, cytokine-mediated signaling, chemokine production, NF-\u03baB activation (I-kappaB phosphorylation), and NLRP3 inflammasome assembly. The mix of positive regulation of interferon production, chemokine upregulation, and modulation of JAK-STAT signaling fits a cohesive theme of pathogen recognition leading to downstream inflammatory and cytokine responses, rather than a single isolated pathway. Overall, this cluster appears to group proteins involved in innate immune detection and inflammatory signaling pathways.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034346","count":1},{"id":"GO:0046426","count":1},{"id":"GO:1900227","count":1},{"id":"GO:0007252","count":1},{"id":"GO:0032722","count":1}]},{"hash":"1740844658107199012","title":"Branched-chain amino acid metabolism","description":"Most GO terms point to biosynthesis and catabolism of branched-chain amino acids (L-isoleucine, L-leucine, L-valine) plus related D-amino acid metabolism. This shared theme suggests the cluster represents the branched-chain amino acid metabolic pathway, with a few unrelated annotations (glucose catabolism, folic acid biosynthesis) contributing minor noise. Thus the label captures the core function of the proteins in this cluster.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":1},{"id":"GO:0046656","count":1},{"id":"GO:0010817","count":1},{"id":"GO:0006550","count":1},{"id":"GO:0046437","count":1}]},{"hash":"589437795773222311","title":"Actin-driven polarity and endocytosis","description":"GO terms cluster around actin cytoskeleton dynamics (Arp2/3-mediated actin nucleation, actin cortical patch localization), membrane trafficking (endocytosis), and cell polarity shaping, with a note on mitochondrion localization. Together these suggest a functional module of actin-driven cell polarity and endocytosis.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071963","count":1},{"id":"GO:0051654","count":1},{"id":"GO:0034314","count":1},{"id":"GO:0051666","count":1},{"id":"GO:0006897","count":1}]},{"hash":"1591535606703185486","title":"DNA replication, transcription regulation, and damage response","description":"The top GO terms cluster around nuclear processes: DNA replication, cell cycle, regulation of DNA-templated transcription, cell division, and SOS/damage response, suggesting a genome maintenance and transcription control module. Some terms (rRNA base methylation, ER unfolded protein response, proline biosynthesis) may reflect broader or secondary annotations, but the core appears to be DNA replication and transcription regulation with DNA damage signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030968","count":2}]},{"hash":"428773052405445785","title":"CDK-regulated transcription during the cell cycle","description":"The cluster centers on activation of cyclin-dependent kinase activity and transcriptional control by RNA polymerase II, linked to core cell cycle processes such as cell cycle progression, mitotic transitions, and cell division. Meiosis I and histoblast morphogenesis appear as related developmental contexts, but the dominant theme is CDK-linked transcriptional regulation during the cell cycle.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":1},{"id":"GO:0045893","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0007488","count":1},{"id":"GO:0007127","count":1}]},{"hash":"1136227574061602247","title":"DNA Damage Repair and Mitotic Chromatin Maintenance","description":"The cluster combines DNA repair processes (DSB processing, global genome NER), telomeric/ subtelomeric chromatin maintenance, and mitotic cell cycle control (G2/M transition) alongside SCF\u2013proteasome\u2013mediated protein turnover, suggesting a coordinated module for DNA damage response, chromatin regulation at telomeres, and mitotic progression via ubiquitin-dependent degradation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043951","count":5},{"id":"GO:0031939","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0031146","count":5}]},{"hash":"2073841046346009567","title":"Plant lipid and glycan biosynthesis","description":"This cluster is enriched for lipid-related biosynthesis (phospholipids, glycolipids, and GPI anchors) and glycan/glycoprotein processes, along with plant-type cell wall biogenesis. Together these terms point to a cohesive function in plant lipid and glycan assembly and cell wall construction, with a hint of osmotic stress response. ","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009413","count":1},{"id":"GO:0009247","count":1},{"id":"GO:0006006","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0009832","count":1}]},{"hash":"653270563067075148","title":"Redox Homeostasis and Protein Repair","description":"This cluster centers on redox balance and maintenance of proteins under oxidative stress, highlighted by terms for cellular redox homeostasis, protein deglutathionylation, cellular oxidant detoxification, and protein repair. While there are a couple of transcription-related terms that are less central, the redox maintenance theme dominates, suggesting a functional link to proteome protection and redox regulation in this group.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0080058","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1903026","count":1}]},{"hash":"1691643234106134890","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1905000","count":2},{"id":"GO:0016479","count":2},{"id":"GO:0007195","count":2},{"id":"GO:0003382","count":2},{"id":"GO:0035278","count":2}]},{"hash":"1098097919048229606","title":"ADP-ribosylation and telomere maintenance regulators","description":"The top GO terms are dominated by ADP-ribosylation (auto- and poly-ADP-ribosylation) and regulation of telomere maintenance/capping, suggesting these proteins function in ADP-ribosylation-related chromosomal/telomere regulation. While there are a few signaling-related terms (Wnt/ephrin) appearing, they are less representative of the cluster\u2019s main theme. This points to a cohesive, albeit small, group centered on post-translational modification and telomere maintenance.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0007205","count":2},{"id":"GO:1901187","count":2},{"id":"GO:0070213","count":2},{"id":"GO:1904355","count":2}]},{"hash":"1617682218888757276","title":"Peptide Hormone Processing and Secretion","description":"The terms cluster around processing of proproteins into active peptides and hormones\u2014dibasic protein processing, insulin processing, enkephalin processing, nerve growth factor production, and renin secretion\u2014pointing to peptide hormone and neuropeptide maturation and release. LDL receptor catabolic and bone resorption terms are more divergent but may reflect broader protein trafficking and remodeling contexts; overall, the dominant theme is peptide processing and secretion.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090472","count":1},{"id":"GO:0032802","count":1},{"id":"GO:0045453","count":1},{"id":"GO:0032805","count":1},{"id":"GO:0032902","count":1}]},{"hash":"298730852777601392","title":"N-terminal and polyamine acetylation","description":"The top GO terms are dominated by acetylation-related modifications: several N-terminal acetylation terms and propionylation, plus spermidine and spermine acetylation. A few terms relate to chromatin state and mitosis, which can be influenced by acetylation. This suggests the proteins cluster around acetylation pathways, including enzymes/modulators of protein and polyamine acetylation, with possible ties to chromatin regulation and developmental processes.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":5},{"id":"GO:0017196","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0006474","count":5},{"id":"GO:0061606","count":5}]},{"hash":"580019409891184999","title":"Immune regulation and leukocyte trafficking","description":"The dominant terms center on immune modulation and leukocyte movement\u2014negative regulation of extravasation and neutrophil degranulation, plus granuloma formation and B cell differentiation\u2014pointing to immune response control and leukocyte trafficking. The vascular remodeling term fits as related to inflammatory processes, while a few neural/muscle development terms appear ancillary and less central to the cluster\u2019s core theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002692","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0032228","count":1},{"id":"GO:0060304","count":1}]},{"hash":"157736531544678332","title":"GPI anchor biosynthesis and attachment","description":"The cluster includes strong signals for GPI anchor biosynthesis and attachment to proteins (GO:0006506, GO:0016255), suggesting a shared function in generating and anchoring GPI-anchored proteins. The other GO terms are diverse (neural differentiation, Wnt signaling, mechanosensation, actin assembly, electrical coupling, SA node action potential, myeloid apoptosis) and may reflect incidental annotations or multifunctionality, especially given there are no observed edges among the proteins. Overall, the most coherent theme is GPI-anchor biosynthesis/attachment, hence this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":2},{"id":"GO:0050976","count":1},{"id":"GO:0046425","count":1},{"id":"GO:0006506","count":1},{"id":"GO:0016255","count":1}]},{"hash":"165458819280086356","title":"Developmental Morphogenesis","description":"The GO terms point to morphogenesis across diverse tissues and organs (anterior midgut invagination, imaginal disc\u2013derived leg morphogenesis, midbrain morphogenesis, pericardium morphogenesis), with supporting signals like Rho-mediated cytoskeletal changes that can drive shape changes. This suggests a unifying theme of tissue and organ formation rather than a single pathway, making \"Developmental Morphogenesis\" a concise, representative label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":1},{"id":"GO:0007375","count":1},{"id":"GO:0036309","count":1},{"id":"GO:0007480","count":1},{"id":"GO:0060124","count":1}]},{"hash":"148952939319612646","title":"Golgi Vesicle Trafficking and Organization","description":"Explanation: Top GO terms center on Golgi-associated vesicle transport and Golgi organization (retrograde Golgi-ER transport, retrograde transport within Golgi, and Golgi organization), with additional autophagy-related terms (pexophagy and CVT pathway) that still pertain to vesicle trafficking routes connected to the Golgi. This suggests a cohesive function in Golgi vesicle trafficking and maintenance, with a related autophagy aspect.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":1},{"id":"GO:0030242","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0048213","count":1},{"id":"GO:0000301","count":1}]},{"hash":"1112427275178716210","title":"Unknown","description":"The top GO terms span mitotic regulation, development, RNA processing, metabolism, and calcium sensing, with no unifying theme across the terms. This diverse mix suggests the proteins do not share a single cohesive function, so a specific label isn\u2019t discernible beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903501","count":4},{"id":"GO:1905213","count":4},{"id":"GO:0060487","count":4},{"id":"GO:1903799","count":4},{"id":"GO:0051343","count":4}]},{"hash":"682330085779994469","title":"Transcription and ribosome biogenesis","description":"Most of the top GO terms revolve around transcription by RNA polymerases I\u2013III and associated RNA processing, including RNA-templated transcription, elongation, and termination, plus ribosome biogenesis. This points to a cluster of proteins linked to transcriptional machinery and ribosome production; a few outlier terms appear peripheral noise.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":2},{"id":"GO:0006366","count":1},{"id":"GO:0006354","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0042797","count":1}]},{"hash":"2189550915629378605","title":"Unknown","description":"The provided GO terms are highly diverse, including mitotic regulation, cell differentiation, miRNA processing, metabolism, and lymphangiogenesis. There is no single dominant process linking all terms, so a concise, representative label cannot be confidently assigned.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903501","count":4},{"id":"GO:1905213","count":4},{"id":"GO:0060487","count":4},{"id":"GO:1903799","count":4},{"id":"GO:0051343","count":4}]},{"hash":"352221417218627855","title":"Keratinocyte development and cytoskeletal remodeling","description":"The top GO terms cluster around epithelial keratinocyte development, wound healing and cell spreading, focal adhesion regulation, and actin cytoskeleton dynamics, with supporting hints from exocytosis and protein stability regulation. This combination suggests a theme of keratinocyte differentiation and migration governed by cytoskeletal remodeling and cell-adhesion processes. Despite no detected interactions, the terms point to a cohesive epithelial repertoire centered on development and movement. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0000186","count":2},{"id":"GO:0044319","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0051893","count":2}]},{"hash":"1584110244252099199","title":"DNA Replication and Cell Division","description":"Most informative terms are DNA replication (leading strand elongation) and cell division, suggesting the proteins are involved in genome duplication and mitotic progression. Other terms like stress granule disassembly and development are present but less representative of the core function. Therefore, labeling as DNA Replication and Cell Division captures the predominant theme.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0000742","count":2},{"id":"GO:0019079","count":1}]},{"hash":"1124786725288468818","title":"Stress-Response Signaling and Mitochondrial Regulation","description":"The terms cluster around cellular responses to toxins and insecticides, and signaling pathways such as TNF and interferon, suggesting stress- and immune-related signaling. The inclusion of mitochondrial fusion regulation and calcium channel regulation indicates coordination of mitochondrial dynamics and calcium signaling under stress. Ubiquitination and endocytosis regulation point to broader protein homeostasis and trafficking control in response to stress. Taken together, these proteins appear to participate in stress-induced signaling with mitochondrial and trafficking regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010637","count":4},{"id":"GO:0006357","count":4},{"id":"GO:0017085","count":4},{"id":"GO:0097237","count":4},{"id":"GO:0051865","count":4}]},{"hash":"1240585220093862918","title":"RNA modification and snoRNP assembly","description":"This cluster's GO terms are dominated by RNA processing and RNA-modifying activities: box H/ACA snoRNP assembly, snoRNA-guided rRNA pseudouridine synthesis, snRNA pseudouridine synthesis, as well as ribosome biogenesis and telomerase components (telomerase holoenzyme assembly, RNA stabilization, and Cajal body localization). The convergence on snoRNPs, pseudouridylation, and ribosome biogenesis suggests proteins involved in RNA modification/processing and assembly of RNA-protein complexes, rather than signaling or metabolic processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016973","count":1},{"id":"GO:0051096","count":1},{"id":"GO:0032781","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0000493","count":1}]},{"hash":"1230378428039191063","title":"Diverse Metabolic Catabolism","description":"The Top Terms show multiple catabolic processes across different substrates (heme, uracil, triglycerides, alkaloids, juvenile hormone) and related metabolic activities, with a few outliers (iron import, APP biosynthesis regulation). This suggests a broad set of metabolic/catabolic functions rather than a single, cohesive pathway, hence a label reflecting diverse metabolic catabolism. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042167","count":1},{"id":"GO:0033212","count":1},{"id":"GO:0042984","count":1},{"id":"GO:0006212","count":1}]},{"hash":"1544737070718123485","title":"Membrane Ion Transport","description":"This cluster is dominated by GO terms for ion and transmembrane transport (arsenite, sodium, potassium, phosphate; transmembrane transport), suggesting the proteins function as membrane transporters or in ion movement. A few terms related to ubiquitination regulation and stress responses appear but are less representative of the core function. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015700","count":1},{"id":"GO:2000185","count":1},{"id":"GO:0006814","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0006813","count":1}]},{"hash":"1768279582879008684","title":"Unknown","description":"The top terms are highly diverse, including metabolic processes (uracil catabolic, 2-oxobutyrate biosynthesis), tissue development (lung and kidney development), and regulatory processes (G1 to G0 transition, negative regulation of translation, epithelial proliferation). This mix shows no clear, cohesive functional theme tying the four proteins together, making a precise label difficult.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006212","count":1},{"id":"GO:0046360","count":1},{"id":"GO:0009097","count":1},{"id":"GO:0030324","count":1},{"id":"GO:1902074","count":1}]},{"hash":"1582228762747236663","title":"Unknown","description":"The GO terms span immune regulation (B cell homeostasis, GM-CSF response) and broad signaling processes (EGF-related signaling, PI3K/AKT), plus cell cycle, splicing, and ubiquitination. There is no single cohesive function that unites these proteins; they appear involved in diverse cellular processes rather than a core pathway. With only one edge among four proteins and heterogeneous terms, a specific shared role is not evident.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001782","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0007205","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0016477","count":2}]},{"hash":"184983686378556974","title":"Mitochondrial membrane potential regulation and transport","description":"This cluster centers on mitochondrial functions: regulation of membrane potential and response to oxidative stress, plus multiple mitochondrial transmembrane transport processes (ADP, CoA, phosphate, heme) and apoptotic mitochondrial changes. The recurring GO terms point to a theme of mitochondrial energy metabolism and stress response, suggesting these proteins coordinate membrane potential dynamics and metabolite transport during oxidative stress and apoptosis.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":2},{"id":"GO:0006979","count":2},{"id":"GO:0035349","count":1},{"id":"GO:0008637","count":1},{"id":"GO:0000066","count":1}]},{"hash":"659296426296349848","title":"Sterol and isoprenoid biosynthesis","description":"The GO terms are dominated by pathways producing sterols and isoprenoids: ergosterol biosynthesis, cholesterol biosynthesis, farnesyl diphosphate biosynthesis, and the mevalonate pathway, with acetyl-CoA as a precursor. This strongly suggests enzymes involved in lipid/isoprenoid metabolism, a pattern typical of fungi where ergosterol is the main sterol. Other terms like cell cycle regulation, light response, antibiotic biosynthesis, liver development, and apoptotic signaling appear incidental or less central to this cluster. Confidence: High","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":1},{"id":"GO:0006084","count":1},{"id":"GO:0006696","count":1},{"id":"GO:0009645","count":1},{"id":"GO:0010142","count":1}]},{"hash":"203601419922259107","title":"Bacterial LPS core and glycan biosynthesis","description":"This cluster is dominated by GO terms related to lipopolysaccharide core and glycan biosynthesis (e.g., LPS core region biosynthetic process, lipopolysaccharide biosynthetic process, ADP-L-glycero-beta-D-manno-heptose and GDP-mannose metabolic processes) and lipid-related biosynthesis (methyl-branched fatty acid biosynthetic process), pointing to a theme of bacterial cell envelope glycan/lipid assembly. Some terms (retinol/retinal metabolism) seem unrelated or noisy annotations, which is why the connection is not perfect. Overall, a cohesive bacterial envelope biosynthesis theme fits best, hence a Medium confidence. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042208","count":3},{"id":"GO:0042572","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0009699","count":2}]},{"hash":"1838039979089502451","title":"Protein quality control and stress response","description":"The top GO terms cluster around ubiquitination and ER-associated degradation (protein quality control), along with chaperone-mediated protein assembly and stress signaling pathways (hydrogen peroxide response, JNK cascade, TNF signaling). This suggests a core theme of proteostasis and cellular stress response, despite some more divergent terms (glucocorticoid metabolism, X chromosome dosage compensation, ABA biosynthesis) that appear as less-connected outliers. Overall, the dominant signal points to proteins involved in maintaining protein homeostasis under stress.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0090035","count":2}]},{"hash":"1372260570314263978","title":"Cytoskeletal Regulation and Angiogenesis","description":"The prominent GO terms cluster around suppressing Rho/Rac-driven cytoskeletal changes (stress fiber assembly) and promoting endothelial tube extension, suggesting proteins that regulate cytoskeletal dynamics in vascular morphogenesis. Other terms (metal stress responses, proteasomal turnover, circadian regulation) are present but less central to the core theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0042752","count":1}]},{"hash":"1057239636391141658","title":"Proteolysis and protein degradation regulation","description":"The top terms are dominated by proteolysis and ubiquitin-dependent protein catabolic processes, with several modifiers related to protein turnover and post-translational regulation (e.g., acetylation regulation and deglycation). While there are a few miscellaneous terms (immune signaling, amino acid metabolism), the central theme points to proteostasis control via degradation pathways, justifying a proteolysis/degradation-focused label.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0060081","count":1},{"id":"GO:0032757","count":1},{"id":"GO:1902177","count":1}]},{"hash":"972749047031375411","title":"Unknown","description":"This cluster's GO terms span several unrelated metabolic and cellular processes (various hydrocarbon and ethanol catabolic pathways, photosynthesis, mitochondrial ribosome assembly, transport and centrosome-related regulation) with no clear common function. Because there is no cohesive theme linking these proteins, a specific functional label is not justifiable.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":1},{"id":"GO:0006067","count":1},{"id":"GO:0061668","count":1},{"id":"GO:0042184","count":1},{"id":"GO:1902600","count":1}]},{"hash":"311619447146385677","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015786","count":1},{"id":"GO:0072334","count":1},{"id":"GO:0032973","count":1},{"id":"GO:0034221","count":1},{"id":"GO:0046963","count":1}]},{"hash":"2159820826729892803","title":"Germline Development and Meiosis","description":"The top GO terms cluster around germline biology: germarium-derived cystoblast division, female germ-line stem cell population maintenance, male germ-line cyst encapsulation, and meiosis I, suggesting the proteins are involved in germline development and meiotic progression. Some other terms appear unrelated (translation regulation, repair, deneddylation, muscle differentiation), likely annotation noise, but the core signal points to germline development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070321","count":1},{"id":"GO:0048142","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0036099","count":1}]},{"hash":"644388509953013446","title":"Redox Balance and Detoxification","description":"The top GO terms show a clear focus on redox-related processes: cell redox homeostasis, cellular oxidant detoxification, and oxidation-reduction-related functions, plus protein deglutathionylation. These point to a cluster engaged in maintaining redox balance and detoxifying reactive species. A few terms (e.g., methylamine metabolism, nucleotide biosynthesis, and unrelated migration terms) are peripheral and may reflect broader metabolic context or annotation noise, but the dominant signal is redox regulation. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0030416","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0080058","count":1}]},{"hash":"252597430174157989","title":"Lipid and steroid metabolism","description":"The top GO terms cluster around lipid biosynthesis (mycolic acid, very long-chain and methyl-branched fatty acids, 3-keto-sphinganine) and retinoid metabolism (retinal, retinol), plus steroid hormone metabolism (C21-steroid, estrogen, androgen catabolic). This pattern points to proteins involved in lipid/sterol and retinoid pathways, rather than a single narrowly defined process, supporting a label of lipid and steroid metabolism.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071768","count":1},{"id":"GO:0042574","count":1},{"id":"GO:0006666","count":1},{"id":"GO:1902321","count":1},{"id":"GO:0042572","count":1}]},{"hash":"517632430289087065","title":"Amino acid and cofactor biosynthesis","description":"The Top Terms show multiple amino acid biosynthesis pathways (tryptophan, serine, isoleucine in older annotations) and related small-molecule biosynthesis (pyruvate, 2-oxobutyrate) plus cofactor biosynthesis (quinolinate for NAD, coenzyme M). Although there are some catabolic terms, the strongest signal is biosynthesis of amino acids and cofactors, suggesting a metabolic cluster focused on building these essential molecules.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":2},{"id":"GO:0019805","count":2},{"id":"GO:0070814","count":1},{"id":"GO:0009097","count":1},{"id":"GO:0046360","count":1}]},{"hash":"1011691860990719235","title":"Neuronal and cardiac excitability","description":"The top GO terms point to electrical signaling in excitable tissues: membrane hyperpolarization and repolarization processes, potassium export, neuronal action potentials, and regulation of heart rate via cardiac conduction, indicating a shared theme of membrane potential control in nervous and cardiac cells. Some terms also touch on CNS structure (optic nerve, globus pallidus development), but the dominant signal is excitability and electrical signaling across neurons and heart tissue.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":1},{"id":"GO:0071435","count":1},{"id":"GO:0021633","count":1},{"id":"GO:0098914","count":1},{"id":"GO:0050966","count":1}]},{"hash":"1221786712680118749","title":"Lipid and Steroid Metabolism","description":"This cluster shows enrichment for lipid- and steroid-related biosynthetic/metabolic processes, including very long-chain fatty acid biosynthesis, 3-keto-sphinganine (sphingolipid) metabolism, retinal/retinol metabolism, and C21-steroid hormone metabolism, with supporting signals from androgen catabolic and mycolic acid biosynthesis terms. While a couple of amino acid biosynthesis terms appear, the dominant themes center on lipid and steroid metabolism, making this label representative of the cluster\u2019s function.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009097","count":2},{"id":"GO:0009099","count":2},{"id":"GO:0071768","count":1},{"id":"GO:0042574","count":1}]},{"hash":"1308820996138353109","title":"Nucleic Acid and Carbohydrate Metabolism","description":"This cluster includes GO terms for DNA replication/biosynthesis and several carbohydrate catabolic processes (starch, alpha-glucan, polysaccharide digestion) plus cofactor biosynthesis (CoA, NAD+). The shared theme appears to be broad metabolic roles spanning nucleic acid metabolism and carbohydrate turnover, though the connection is not tightly specific. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0071897","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0046940","count":1},{"id":"GO:0046939","count":1}]},{"hash":"2133517649860431065","title":"Unknown","description":"The GO terms are varied and not cohesively tied to a single function: lipid/metabolic processes (sphingosine and glycosphingolipid metabolism) appear alongside detoxification and diverse developmental/signaling terms (pituitary development, germ cell repulsion, Wnt-related adhesion and wound healing). With no edge connections and no dominant shared process, there isn\u2019t a clear unifying theme to label this cluster meaningfully.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0009395","count":1},{"id":"GO:0044329","count":1},{"id":"GO:0015760","count":1}]},{"hash":"2235263296206405464","title":"Redox Homeostasis and Protein Repair","description":"The top GO terms cluster around redox balance (cell redox homeostasis, cellular oxidant detoxification) and protein maintenance activities (deglutathionylation, protein repair). A few terms about nuclear regulation or viral processes are present but at low frequency and do not define a single pathway. Thus, the dominant theme is redox balance coupled with protein maintenance.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:0080058","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0016032","count":1},{"id":"GO:1903026","count":1}]},{"hash":"118159679791155124","title":"Rho GTPase signaling and GPCR signaling","description":"The top GO terms show strong enrichment for Rho protein signal transduction and small GTPase-mediated signaling, along with GPCR signaling and calcium-dependent exocytosis, suggesting a cluster of proteins involved in cytoskeletal regulation and vesicle release driven by Rho GTPases and GPCR pathways. Additional terms related to metabolic stress and nervous system processes likely reflect broader signaling context, but the core theme remains Rho/GPCR\u2013driven signaling and exocytosis.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0007213","count":2}]},{"hash":"2099034434064612304","title":"Developmental growth and morphogenesis signaling","description":"This cluster centers on developmental growth and morphogenesis, with terms for myoblast fusion (muscle development), axonogenesis (neural development), and cell-matrix adhesion, plus growth signaling via VEGF and PDGF pathways, indicating a cohesive theme of tissue development and morphogenesis.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001954","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0048638","count":3},{"id":"GO:0007520","count":3},{"id":"GO:0021952","count":3}]},{"hash":"1520316138059331861","title":"DNA repair and ubiquitin-proteasome turnover","description":"The terms cluster around genome maintenance (NER, DSB processing, telomere/chromatin aspects) coupled with ubiquitin-proteasome\u2013mediated protein turnover (SCF degradation, autoubiquitination, ERAD, and cytoplasmic quality control). This suggests a functional module where proteostasis and targeted degradation regulate DNA repair and genome stability.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070911","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0043951","count":3},{"id":"GO:0031939","count":3}]},{"hash":"478414199128986960","title":"Unknown","description":"The GO terms listed cover a broad and disparate set of processes (ER-Golgi vesicle transport, peptidyl-serine dephosphorylation, mitotic regulation, differentiation, miRNA processing, lipid A biosynthesis, meiotic recombination, calcium detection) with no clear, shared function linking all four proteins. Because there isn\u2019t a coherent theme to tie them together, a specific functional label isn\u2019t identifiable. Confidence: None","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0070262","count":3},{"id":"GO:1903501","count":2},{"id":"GO:1905213","count":2},{"id":"GO:0060487","count":2}]},{"hash":"2066840951628985275","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"The cluster shows strong enrichment for ubiquitin-related proteolysis terms (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; ubiquitin-dependent protein catabolic process; positive regulation of protein polyubiquitination) and a cell-cycle/damage checkpoint term (mitotic G1 DNA damage checkpoint signaling), suggesting a core function in regulated protein turnover during cell cycle and DNA damage response. Other terms (translation, circadian regulation, synapse-related processes) appear softer and likely context-specific noise, but do not outweigh the ubiquitin\u2013proteasome/ cell-cycle signal.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0031571","count":2},{"id":"GO:1902916","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0030174","count":1}]},{"hash":"221632409539995112","title":"Membrane Ion and Water Transport","description":"Based on the GO terms, the cluster is enriched for transmembrane transport of various ions (protons, nitrate, potassium, chloride) and water, along with regulation of cell volume and pH response. This suggests proteins functioning as ion channels or transporters that move ions and water across membranes; a single developmental term appears incidental to this dominant transport theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0060689","count":1},{"id":"GO:0035377","count":1},{"id":"GO:0045794","count":1}]},{"hash":"687196462999144359","title":"Developmental Signaling Pathways","description":"The proteins are enriched for multiple developmental signaling routes (Smoothened, Roundabout), nervous system and kidney development, and also include T cell receptor signaling, suggesting a cluster of factors involved in development and intercellular communication rather than a single pathway.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0035385","count":3},{"id":"GO:0001822","count":3}]},{"hash":"394822859824089221","title":"Organelle Membrane Trafficking and Contacts","description":"The cluster\u2019s terms are dominated by membrane-related processes: regulation of vacuole fusion, membrane addition at cytokinesis, Rab protein signaling, and mitochondrion-ER tethering, all pointing to intracellular membrane dynamics and organelle contact/trafficking. While other terms touch on nuclear processes (mitotic cell cycle, heterochromatin formation) and apoptosis, the strongest signal comes from membrane trafficking and organelle interactions, which justifies a focused label. Overall, the connection is present but not exclusive, so a Medium confidence is appropriate.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032889","count":1},{"id":"GO:0007107","count":1},{"id":"GO:0001508","count":1},{"id":"GO:0090324","count":1},{"id":"GO:1990456","count":1}]},{"hash":"1976735334034385648","title":"Ubiquitination-Regulated Signaling and Transcription","description":"The top terms show direct involvement in ubiquitin cycling (deubiquitination and autoubiquitination) with additional regulatory terms spanning mitochondrial dynamics, endocytosis, transcription by RNA polymerase II, calcium channel activity, and responses to toxins, suggesting a shared theme of ubiquitin-mediated control of signaling and transcription, including stress responses.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":3},{"id":"GO:0010637","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0017085","count":2},{"id":"GO:0097237","count":2}]},{"hash":"351863678771196967","title":"Nucleotide salvage and metabolism","description":"The top GO terms show multiple salvage pathways: AMP salvage, uracil salvage, hypoxanthine salvage, and xanthine metabolic process, pointing to nucleotide salvage/metabolism as the core function of this cluster. Other terms like protein homooligomerization, dendrite morphogenesis, lactation, and transcription regulation are present but less central, likely reflecting incidental annotations. Given the strongest signal around nucleotide salvage, this label captures the dominant theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0019835","count":1},{"id":"GO:0044209","count":1},{"id":"GO:0048813","count":1},{"id":"GO:0006353","count":1}]},{"hash":"1057433318117892854","title":"Ribosome Biogenesis and Translation","description":"The majority of top GO terms refer to ribosome assembly and function (ribosome biogenesis, small subunit biogenesis, large subunit export from nucleus, cytoplasmic translation). While terms about cell cycle/division are present, they appear secondary. Thus the cluster likely represents proteins involved in ribosome maturation and protein synthesis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0042274","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0090529","count":1}]},{"hash":"1853616600327812760","title":"Ocular and retinal development","description":"The GO terms cluster strongly around eye/retina biology: embryonic camera-type eye development, retinal metabolic process, cellular response to retinoic acid, and Harderian gland development (eye region). These point to a cohesive theme of ocular/retinal formation and associated metabolic signaling, with supportive vascular and axis-patterning terms, suggesting a developmental eye/retina focus rather than unrelated processes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031076","count":3},{"id":"GO:0036293","count":3},{"id":"GO:0055129","count":3},{"id":"GO:0071300","count":3},{"id":"GO:0070384","count":3}]},{"hash":"917121719963323822","title":"Neuronal microtubule dynamics and dendritic transport","description":"This cluster is headed by terms related to microtubule dynamics (polymerization/depolymerization and regulation of microtubule-based processes) and neuron-specific transport and maintenance (neuron projection maintenance, anterograde dendritic transport of neurotransmitter receptor complexes). The convergence of these neuronal and cytoskeletal GO terms suggests a common function in organizing microtubules to support dendritic transport and maintenance of neuronal projections. Some unrelated terms (like oocyte maturation) are present but do not dominate the functional theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010938","count":1},{"id":"GO:0090035","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0001556","count":1},{"id":"GO:0045218","count":1}]},{"hash":"2151290322617548376","title":"Unknown","description":"The GO terms in this set span apoptotic processes, GPCR signaling, hearing/sensory perception, protein complex assembly, xenobiotic response, DNA repair, cell cycle regulation, and hormone signaling, with no single dominant function tying them together. The lack of edges and the presence of obscure/obsolete terms suggest heterogeneous annotations rather than a cohesive pathway, so no clear cluster function is identifiable.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0042493","count":1}]},{"hash":"732513109937710159","title":"Endocytosis and Vesicle Trafficking","description":"The top GO terms center on endocytic processes (pinocytosis, endosome transport) and actin/cytoskeleton\u2013driven membrane remodeling (podosome assembly, matrix disassembly, GTPase regulation). Despite some unrelated terms, the dominant theme is vesicle trafficking linked to cytoskeletal dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071800","count":1},{"id":"GO:0010252","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0006907","count":1},{"id":"GO:0048310","count":1}]},{"hash":"491045499132160718","title":"Neuronal microtubule transport and projection maintenance","description":"The terms cluster around microtubule-based activities, including plus-end-directed vesicle transport, microtubule-based process regulation, and spindle dynamics, with specific emphasis on neuron projection maintenance and anterograde transport of neurotransmitter receptor complexes. This combination points to proteins that support cytoskeletal organization and cargo movement in neurons, particularly along dendrites.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010938","count":1},{"id":"GO:0045218","count":1},{"id":"GO:1990535","count":1},{"id":"GO:0098971","count":1},{"id":"GO:0032886","count":1}]},{"hash":"2292698523312828360","title":"Nuclear RNA processing and chromatin regulation","description":"The cluster shows strong enrichment for nuclear processes: splicing (mRNA cis splicing via spliceosome, spliceosomal snRNP assembly), tRNA processing, and nuclear import, along with chromatin-related terms (histone mRNA metabolism, pericentric heterochromatin formation). Some terms like ABA response and hair cycle may reflect broader regulatory contexts, but the core theme ties to RNA processing and chromatin organization in the nucleus.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0070317","count":3},{"id":"GO:0009414","count":3},{"id":"GO:0045292","count":3}]},{"hash":"2264017413021692410","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009793","count":1},{"id":"GO:0031425","count":1},{"id":"GO:0090617","count":1},{"id":"GO:1905639","count":1},{"id":"GO:0016554","count":1}]},{"hash":"733960678453093597","title":"Actin Cytoskeleton Assembly and Mitochondrial Localization","description":"These proteins are linked by actin-based cytoskeleton processes (cortical patch assembly, contractile ring contraction, and filament bundle assembly) and mitochondrial localization/inheritance, suggesting a module that coordinates actin remodeling with mitochondrial distribution during cell division. Calcium-responsive signaling and spindle-associated terms support a broader role in signaling-coupled cytoskeletal dynamics, though the core theme centers on actin organization guiding mitochondrial inheritance.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":2},{"id":"GO:0000916","count":2},{"id":"GO:0051654","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0000001","count":2}]},{"hash":"297315098356219626","title":"Vitamin K biosynthesis (menaquinone/phylloquinone)","description":"The top GO terms are dominated by menaquinone and phylloquinone biosynthetic processes, each supported by two proteins, pointing to a shared function in vitamin K biosynthesis. The remaining terms are sparse or less coherent with this core theme, suggesting quinone biosynthesis as the primary link for this cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0042372","count":2},{"id":"GO:0030071","count":1},{"id":"GO:0045722","count":1}]},{"hash":"2200328316869126835","title":"Unknown","description":"The terms span proteolysis, various catabolic and metabolic processes, and even maintenance activities (telomere maintenance, mitochondrial tRNA modification), with no single unifying function evident. This scattered set makes it hard to assign a cohesive label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1},{"id":"GO:0046944","count":1},{"id":"GO:0000722","count":1},{"id":"GO:0072670","count":1},{"id":"GO:0006212","count":1}]},{"hash":"119402068784878480","title":"Alveolar Type II Cell Differentiation","description":"The dominant GO term in the cluster is type II pneumocyte differentiation (GO:0060510) with two proteins, suggesting the primary association is alveolar Type II cell development. The other terms are sparse and cover various metabolic and methylation processes, which may reflect annotation noise or multifunctionality rather than a single coherent function. Overall, the strongest signal points to alveolar type II differentiation, making this label the best single-theme descriptor given the data.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060510","count":2},{"id":"GO:0045963","count":1},{"id":"GO:0042420","count":1},{"id":"GO:0042135","count":1},{"id":"GO:0006479","count":1}]},{"hash":"858636084666668166","title":"Mitochondrial translation machinery","description":"The cluster\u2019s GO terms cluster around mitochondrial protein synthesis, including multiple mitochondrial tRNA aminoacylation activities (Gly, Ser, Ala, Thr, Pro) and the general translation process, plus regulation of translational fidelity. A secondary, less central term concerns diadenosine tetraphosphate biosynthesis. This points to a cohesive theme of mitochondrial translation components. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015966","count":2},{"id":"GO:0070150","count":2},{"id":"GO:0070158","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1903833","count":2}]},{"hash":"1730995908592828006","title":"Potassium ion transport and muscle membrane regulation","description":"The top GO terms cluster around potassium/cation transport across membranes, establishment/maintenance of electrochemical gradients, and muscle-specific membrane organization and contraction regulation (e.g., T-tubule organization and negative regulation of striated muscle contraction). While there are some unrelated terms (lipopolysaccharide biosynthesis, vestibulocochlear nerve formation), the ion transport and muscle membrane function theme is the most coherent signal.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0021650","count":2},{"id":"GO:0099132","count":2},{"id":"GO:0033292","count":2}]},{"hash":"620516306421365166","title":"Unknown","description":"The top GO terms span diverse processes (ubiquitin-dependent protein degradation, receptor-mediated endocytosis, antigen presentation, leptin signaling, senescence, biotin starvation response, desuccinylation, DNA repair, and hypoxia-related transcription), with no clear shared function linking the proteins, and the cluster has no connecting edges, so a cohesive label is not supported.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048260","count":2},{"id":"GO:0042787","count":2},{"id":"GO:2000774","count":1},{"id":"GO:1990383","count":1},{"id":"GO:0045348","count":1}]},{"hash":"719092354828443089","title":"Bacterial Energy Metabolism and Flagellar Motility","description":"The terms cluster around central energy pathways (TCA cycle, aerobic respiration, fermentation, alanine catabolism) and flagellum-associated motility (bacterial-type flagellum assembly and movement), indicating a group of proteins tied to energy production and bacterial locomotion.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019516","count":1},{"id":"GO:0015948","count":1},{"id":"GO:0044780","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0071973","count":1}]},{"hash":"243156303932041571","title":"Chromatin Silencing and Heterochromatin Formation","description":"These proteins cluster around epigenetic regulation of chromatin, highlighted by terms for DNA methylation-dependent heterochromatin formation, subtelomeric/telomeric heterochromatin formation, chromatin silencing, and histone deacetylation. The nucleolar rDNA repeats localization further supports a chromatin-organization theme at rDNA loci. A couple terms touch on signaling pathways, but the dominant signal is chromatin-based silencing and heterochromatin maintenance.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":3},{"id":"GO:0060766","count":3},{"id":"GO:0034503","count":2},{"id":"GO:0031939","count":2},{"id":"GO:0090035","count":2}]},{"hash":"2211826125751783190","title":"Cell growth signaling and cycle regulation","description":"The GO terms cluster around cell cycle processes, growth rate regulation, and several signaling pathways (Notch, MAPK/JNK and PI3K/AKT) with occasional apoptosis and habituation terms. This suggests a general theme of how cells coordinate growth, division, and signaling rather than a single, tightly defined pathway. Therefore, a label focusing on growth signaling and cell cycle regulation fits best, with some caveats due to the diverse terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0006094","count":1},{"id":"GO:0000200","count":1},{"id":"GO:0051229","count":1},{"id":"GO:0007219","count":1}]},{"hash":"811957167484861824","title":"Unknown","description":"There are no GO terms listed for this cluster, so there is no detectable shared biological function or process to label. With only three proteins and two edges and no enrichment signals, a meaningful, specific label cannot be inferred.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1122109081368479882","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071035","count":1},{"id":"GO:0072757","count":1},{"id":"GO:0042780","count":1},{"id":"GO:0033259","count":1},{"id":"GO:0009048","count":1}]},{"hash":"174961278337301604","title":"Unknown","description":"The three proteins show a scattered mix of GO terms including vacuole fusion regulation, vitamin biosynthesis (phylloquinone and menaquinone), catabolic and metabolic processes (glycolysis, mandelate, cell wall turnover), and even muscle regeneration, with no clear shared function or pathway linking them. This lack of a cohesive theme makes a confident, representative label unreliable.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032889","count":1},{"id":"GO:0042372","count":1},{"id":"GO:0009234","count":1},{"id":"GO:1903298","count":1},{"id":"GO:0071555","count":1}]},{"hash":"1409707076499214950","title":"Mitochondrial Energy Metabolism","description":"The listed GO terms cluster around energy production and redox processes: NAD+ biosynthesis, ubiquinone biosynthesis, lipoate metabolism, and glycolytic process all relate to central metabolism and mitochondrial function, with redox homeostasis supporting these pathways. While a few terms touch on development or immune responses, the dominant theme is metabolism and energy generation, suggesting a mitochondria-associated metabolic cluster.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050768","count":1},{"id":"GO:0032496","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0071320","count":1},{"id":"GO:0009435","count":1}]},{"hash":"485224343978000345","title":"Germline development and meiosis","description":"Based on the recurring GO terms related to germline stem cell maintenance, cystoblast division, germ-line cyst encapsulation, and meiosis I, the cluster appears best described by germline development and meiotic processes. A few other terms may be incidental annotations, but the dominant pattern ties to germline differentiation and meiosis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070321","count":1},{"id":"GO:0048142","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0036099","count":1}]},{"hash":"1007052794182238292","title":"Unknown","description":"There are no GO terms listed to tie the proteins together, and the cluster has minimal connectivity (one edge, no triangles), so no coherent functional theme can be inferred. ","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1738587930913136058","title":"Neuronal development and sensory function","description":"This cluster shows GO terms tied to neural development and sensory systems, including neuron differentiation morphogenesis, intracellular calcium homeostasis, neuromuscular posture control, rhodopsin biosynthesis, and sensory perception of sound. Although some catabolic terms (chitin, ganglioside, proteoglycan) appear, they can relate to neural lipid metabolism and extracellular remodeling in neurons. Overall, the terms point to nervous system development and sensory signaling functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006032","count":1},{"id":"GO:0006689","count":1},{"id":"GO:0016063","count":1},{"id":"GO:0009313","count":1},{"id":"GO:0050884","count":1}]},{"hash":"1082384868263262910","title":"Fatty acid elongation and biosynthesis","description":"The set is dominated by GO terms for fatty acid elongation and biosynthesis, including unsaturated, monounsaturated, polyunsaturated, and saturated fatty acids, plus long-chain fatty-acyl-CoA and long-chain fatty acid biosynthetic processes. While a couple of trafficking-related terms (post-Golgi vesicle transport, multivesicular body sorting) appear, their representation is far less frequent, so the central theme is lipid metabolism with a focus on elongation steps.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006636","count":1},{"id":"GO:0034625","count":1},{"id":"GO:0034626","count":1},{"id":"GO:0006892","count":1},{"id":"GO:0035338","count":1}]},{"hash":"322604315831116057","title":"Translation machinery and ribosome assembly","description":"The top GO terms are dominated by translation processes and ribosome-related steps: translation, ribosomal large subunit assembly, and formation/activation of translation initiation complexes, plus translational termination and positive regulation of cytoplasmic translation. This strongly indicates the cluster represents components of the protein synthesis apparatus and ribosome biogenesis, with other terms (like oogenesis or glial proliferation) likely incidental. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0030154","count":1},{"id":"GO:0048477","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0000027","count":1}]},{"hash":"1579910525667962192","title":"RNA and Protein Methylation","description":"The cluster shows multiple GO terms for methylation, including peptidyl-lysine dimethylation, peptidyl-arginine methylation, peptidyl-glutamine methylation, and rRNA methylation, suggesting a shared function around methyltransferase activity modifying RNA and proteins. Some other terms may be incidental, but the methylation-related terms give a cohesive theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036068","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0018027","count":1},{"id":"GO:0019919","count":1},{"id":"GO:0000056","count":1}]},{"hash":"1494724746455537364","title":"Developmental differentiation and morphogenesis","description":"The proteins map to several differentiation and morphogenesis processes (mesodermal and myoblast differentiation, oocyte maturation, uterus morphogenesis) and cytoskeletal dynamics (microtubule polymerization), suggesting a shared role in cell fate specification and tissue formation, despite some obsolete annotations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":1},{"id":"GO:0061428","count":1},{"id":"GO:0048333","count":1},{"id":"GO:0070544","count":1},{"id":"GO:0001556","count":1}]}]