[{"hash":"363883114932953915","title":"Neuroendocrine development and RNA processing","description":"The cluster shows strong signals for cerebral cortex and pituitary gland development, plus enrichment for alternative mRNA splicing via spliceosome and hormone biosynthetic process regulation, suggesting roles in neuroendocrine development and gene expression regulation at the RNA level. Obsolete terms and some metabolic processes appear, which may reflect annotation noise rather than core function, but the central theme remains neural-endocrine development and RNA processing.","confidence":"Medium","size":29,"edges":295,"triangles":1506,"max_degree":27,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032496","count":8},{"id":"GO:0055114","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0021987","count":6},{"id":"GO:0043046","count":6}]},{"hash":"1536293634173097243","title":"RNA Processing and Ribosome Biogenesis","description":"The strongest GO signals are mRNA splicing via spliceosome and maturation/biogenesis of ribosomal RNA and the large ribosomal subunit, pointing to RNA processing and ribosome assembly as the cluster\u2019s core function. A few terms related to neuron development or sensory perception appear but with lower frequency, likely background noise. Overall, the cluster seems driven by RNA metabolism processes rather than a single signaling or developmental pathway.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0042273","count":5},{"id":"GO:0016575","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5}]},{"hash":"109302312019811128","title":"Proteostasis under heat stress","description":"This cluster is dominated by ubiquitin-dependent protein degradation, ER-associated degradation, and protein folding/refolding terms, all pointing to cellular proteostasis and response to heat stress. While there are a few terms related to cytoskeletal assembly (filopodium, axoneme), the core theme is protein quality control and stress management at elevated temperatures.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0042026","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1872719698869224339","title":"GTPase signaling and epithelial polarity","description":"The cluster is dominated by GTPase-related signaling terms (small GTPase-mediated signaling, regulation of GTPase activity) and epithelial polarity/junction assembly (epithelial cell polarity, bicellular tight junction assembly), with EGFR pathway involvement. Other terms like heart development, cell cycle, mitochondrial fission, and endosome-to-lysosome transport appear as supportive processes but do not define the core theme. ","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0007173","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0007507","count":3}]},{"hash":"447359208396969575","title":"Immune receptor signaling and angiogenesis","description":"This cluster is dominated by GO terms for T cell and B cell receptor signaling, NF-kappaB transcription factor activity regulation, and VEGF receptor signaling with angiogenesis, suggesting a group of proteins involved in receptor-mediated immune and vascular signaling. A few outliers (pollen recognition, corpus callosum development, cytosine metabolism) exist, but the core theme ties receptor signaling to NF-kB activation and angiogenic pathways.","confidence":"High","size":29,"edges":341,"triangles":2252,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":28},{"id":"GO:0033138","count":28},{"id":"GO:0050852","count":28},{"id":"GO:0048010","count":28},{"id":"GO:0048544","count":28}]},{"hash":"587442659941052836","title":"Golgi-to-lysosome trafficking","description":"GO terms cluster around endomembrane organization, lysosome targeting, and Golgi-to-lysosome transport, with additional emphasis on establishing protein localization and ubiquitin-dependent protein turnover. This pattern points to proteins involved in intracellular trafficking within the endomembrane system, delivering or processing cargo to lysosomes and coordinating degradation. Some competing terms related to muscle differentiation and stem cell proliferation are present but less central to the primary trafficking theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010256","count":2},{"id":"GO:0006622","count":2},{"id":"GO:0090160","count":2},{"id":"GO:0030334","count":2},{"id":"GO:0035914","count":2}]},{"hash":"1562032156249510904","title":"DNA transcription and mitotic cell cycle regulation","description":"The top GO terms are dominated by DNA-templated transcription, DNA replication, and mitotic cell cycle, indicating a nuclear, gene-expression and cell-division program. While receptor clustering and cell-matrix adhesion appear among the terms, the core theme centers on transcriptional control and DNA replication/mitosis, justifying a label focused on nuclear processes and cell cycle regulation.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0046677","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0033138","count":6},{"id":"GO:0006260","count":5}]},{"hash":"251237458974571176","title":"Mitochondrial oxidative phosphorylation","description":"The cluster is dominated by GO terms for mitochondrial electron transport (ubiquinol to cytochrome c), proton transmembrane transport, aerobic respiration, and mitochondrial ATP synthesis coupled to electron transport, all core to oxidative phosphorylation. These terms point to a cohesive mitochondrial energy-production module, with a few minor transport-related outliers.","confidence":"High","size":29,"edges":307,"triangles":1608,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006122","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0042775","count":2}]},{"hash":"949809758667404448","title":"Viral translation initiation and mRNA export","description":"The top GO terms are dominated by translation initiation and viral translation processes (IRES-dependent initiation, termination-reinitiation, formation of preinitiation complexes, regulation of translational initiation) plus viral mRNA export from host nucleus, suggesting the cluster centers on translation machinery and its use by viruses. A few terms are unrelated (developmental and signaling), but the core theme is translation initiation/viral translation, supporting this label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0046784","count":2},{"id":"GO:0030707","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1484172955699890309","title":"Unknown","description":"The GO terms span lipid biosynthesis, protein turnover, immune signaling, and development across multiple kingdoms, with no clear, unified function tying the 29 proteins together. This makes it hard to assign a specific, representative cluster label, so Unknown is the safest choice.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016024","count":3},{"id":"GO:0000973","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0070236","count":2}]},{"hash":"1097589945469049629","title":"Plant Secondary Metabolism and Lipid Catabolism","description":"These proteins show enrichment for lipid catabolism (triglyceride catabolic process, phospholipid dephosphorylation) and a suite of secondary metabolite pathways (stilbene catabolic process, alkaloid metabolism, antibiotic biosynthesis, beta-ketoadipate pathway). The inclusion of secondary shoot formation and response to toxic substances points to plant development and detoxification roles, aligning with a cluster of plant metabolism and defense-related processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0009820","count":6},{"id":"GO:0046839","count":6}]},{"hash":"2193223243573289138","title":"Cellular stress responses","description":"The top GO terms point to multiple cellular stress response processes, such as unfolded protein response, oxidative stress (diamide), and metal ion responses (cadmium, copper), plus hypoxic signaling. While a few terms are broad or unrelated, the dominant signal is proteins involved in sensing and reacting to cellular stress and maintaining proteostasis under stress. ","confidence":"Medium","size":28,"edges":13,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033169","count":1},{"id":"GO:1900365","count":1},{"id":"GO:1990910","count":1},{"id":"GO:0072738","count":1},{"id":"GO:0034620","count":1}]},{"hash":"584880745490001286","title":"Ribosome biogenesis and translation","description":"This cluster\u2019s top GO terms center on ribosome-related biology: translation, ribosome biogenesis, and small subunit assembly, indicating proteins involved in ribosome production and protein synthesis. While there are accompanying metabolic processes, the dominant theme is ribosome function and assembly, justifying the label. Confidence: High","confidence":"","size":28,"edges":99,"triangles":82,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006407","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1150314431361404065","title":"Diverse Membrane Transporters","description":"Most top GO terms indicate transport across membranes for various substrates (carbohydrate and taurine transport, cobalt ion transport, methionine transport, monoatomic anion transport, teichoic acid and phospholipid/ceramide translocation). A few proteins touch ribosome biogenesis, but transport-related terms dominate, suggesting the cluster groups membrane transport functions across multiple substrates. Therefore the label 'Diverse Membrane Transporters' best captures the main theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0008643","count":2},{"id":"GO:0006824","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0045332","count":2}]},{"hash":"66855622594125938","title":"Plant cell wall glycoprotein biosynthesis and mucilage","description":"The cluster is enriched for cell wall-related terms (cell wall organization, cell wall mannoprotein biosynthetic process) and glycosylation processes (N-linked and O-linked glycosylation via GalNAc), plus mucilage biosynthetic and root hair development terms, pointing to secreted/glycosylated cell-wall proteins involved in mucilage production and root hair formation. Some translation and metabolism terms appear but are more general housekeeping. ","confidence":"High","size":28,"edges":26,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":6},{"id":"GO:0006487","count":3},{"id":"GO:0010192","count":3},{"id":"GO:0016266","count":3},{"id":"GO:0080147","count":3}]},{"hash":"1819661732959567558","title":"Ribosome Biogenesis and TORC1 Signaling","description":"The dominant signals are nuclear pore localization, ribosome biogenesis, and TORC1-related growth signaling, which together describe cellular protein production and growth control. Peroxisome targeting also fits within cellular organization. A few terms (neuron projection development, gastrulation) may reflect broader multifunctionality or annotation noise rather than a defining theme.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031081","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0010255","count":2},{"id":"GO:0050909","count":2}]},{"hash":"2200350508873843239","title":"Xenobiotic-induced apoptosis and stress signaling","description":"The top GO terms emphasize responses to xenobiotics/antibiotics and core apoptosis processes (mitochondrial outer membrane permeabilization and extrinsic death receptor signaling), implying cell fate decisions under chemical stress. Additional terms like lysosome localization and a few unrelated items appear as secondary signals, but the dominant theme is apoptosis triggered by xenobiotic stress.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0097345","count":2},{"id":"GO:0008625","count":2},{"id":"GO:0032418","count":2}]},{"hash":"1364713532984455771","title":"DNA Replication and Genome Integrity","description":"The proteins here are dominated by DNA replication, cell cycle, and DNA repair themes (DNA replication, SOS response, nucleotide-excision repair, and regulation of DNA polymerase activity), with supporting nucleolar processes (nucleologenesis, ribosome biogenesis) that commonly accompany cell growth and genome maintenance. This suggests a cohesive cluster of genome integrity and replication machinery.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0035753","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0006289","count":2}]},{"hash":"194571339155925127","title":"Membrane-Localized Signaling and Transport","description":"The proteins co-occur with GO terms for signaling (intracellular signal transduction, insulin-like growth factor receptor signaling), regulation of phosphorylation, and protein localization to the plasma membrane, plus chloride transport. This points to a shared role in membrane-associated signaling and transport processes, rather than a single narrowly defined function. A tissue-specific term (distal tubule morphogenesis) may reflect context-specific signaling, but the core theme remains membrane-related signaling/transport.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010667","count":2},{"id":"GO:0048009","count":2},{"id":"GO:1905408","count":2},{"id":"GO:0072156","count":2},{"id":"GO:0010800","count":2}]},{"hash":"2267128511337374639","title":"DNA repair and chromatin maintenance","description":"The top GO terms strongly point to nuclear genome integrity and chromatin context\u2014multiple DNA repair pathways (nucleotide-excision repair, single-strand break repair, homologous recombination regulation) and chromatin-related processes (protein localization to chromatin, histone acetylation). A few terms about rRNA maturation appear, but the dominant signals reflect DNA repair and chromatin-associated regulation rather than a ribosome-focused function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0042128","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0010569","count":2}]},{"hash":"520409756831042966","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1732877084959974940","title":"Microtubule-driven trafficking and endocytosis","description":"This cluster centers on microtubule biology and vesicle trafficking: tubulin complex assembly, ER-to-Golgi transport, endosome transport, and endocytic recycling, plus related cytoskeletal roles in spindle orientation and neuronal structure. The dominant theme is coordination of the cytoskeleton with membrane trafficking across cell types, with a few peripheral tissue terms (e.g., liver development) likely secondary. ","confidence":"Medium","size":28,"edges":43,"triangles":3,"max_degree":13,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0007021","count":4},{"id":"GO:1902953","count":4},{"id":"GO:0032486","count":4},{"id":"GO:0048227","count":4},{"id":"GO:0032889","count":4}]},{"hash":"1459173360486708677","title":"Mitosis: Spindle Assembly and Chromatid Cohesion","description":"This cluster's strongest GO signals are centered on mitosis-related processes: spindle assembly, regulation of mitotic progression, and chromatid cohesion. Ubiquitination also supports cell-cycle control. A few terms reference unrelated signaling pathways, but the dominant theme points to mitotic machinery and chromosome segregation.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0000083","count":6},{"id":"GO:0051225","count":6},{"id":"GO:2001275","count":6}]},{"hash":"918229645944157681","title":"Unknown","description":"The terms span transcription, development, immune defense, sensory perception, and other unrelated processes, with no dominant theme or shared pathway; zero edges/triangles suggests little connectivity. This points to an Unknown cluster.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0003380","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0050917","count":1},{"id":"GO:0001582","count":1}]},{"hash":"663446243487013311","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The cluster shows strong enrichment for proteoglycan and glycosaminoglycan biosynthesis, including chondroitin sulfate, heparan sulfate, and heparin proteoglycans, indicating a module focused on extracellular matrix component production and related cell wall organization. Some other terms appear as minor associations but do not dominate the signal.","confidence":"High","size":28,"edges":13,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0050650","count":3},{"id":"GO:0015012","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0071555","count":3}]},{"hash":"347084807218803715","title":"Brain development and cytoskeletal signaling","description":"This cluster\u2019s top GO terms center on brain development and neural processes (brain development, neuron apoptotic process, gastrulation), alongside cytoskeletal/membrane dynamics (Rho signaling regulation, GTPase activation, macropinocytosis). Although a couple chromatin modification terms are labeled obsolete, the dominant pattern ties neural development with cytoskeletal remodeling and signaling. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0007369","count":2},{"id":"GO:0016575","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0043981","count":2}]},{"hash":"1829410450131728872","title":"Diverse signaling and cellular responses","description":"The top GO terms reflect a mix of GPCR signaling (though some terms are obsolete), cell cycle, cardiac action potential regulation, pain response, adipocyte differentiation, ubiquitination, mechanical stimulus response, vasopressin secretion, and vitamin D response. This indicates the proteins participate in multiple signaling and regulatory processes across tissues rather than a single pathway, suggesting a label that conveys broad signaling and cellular response roles.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0007049","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0048265","count":4},{"id":"GO:0045444","count":4}]},{"hash":"669171130814574182","title":"Transcription Regulation and Stress Response","description":"Most represented functions point to transcriptional control, with DNA-templated transcription and negative regulation of transcription by RNA polymerase II being prominent. The cluster also shows stress-related terms such as cellular oxidant detoxification and p53-mediated apoptotic signaling, along with calcium-mediated signaling, suggesting a link between transcriptional regulation and cellular stress responses. Some other terms appear peripheral and may reflect broader annotation rather than core function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0055114","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0017000","count":3}]},{"hash":"1259832547215934103","title":"DNA Damage Response and Checkpoint Signaling","description":"The top GO terms include positive regulation of double-strand break repair via nonhomologous end joining, meiotic recombination checkpoint signaling, and regulation of mitotic DNA damage checkpoints, which together point to a shared function in DNA damage response and cell-cycle checkpoint control. Other terms such as protein dephosphorylation and metabolic processes appear less central and may reflect broader regulatory roles of the included proteins. Overall, the cluster seems to be tethered to DDR and checkpoint signaling with some metabolic context.","confidence":"Medium","size":28,"edges":15,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":3},{"id":"GO:0019433","count":2},{"id":"GO:0055114","count":2},{"id":"GO:2001034","count":2},{"id":"GO:0055059","count":2}]},{"hash":"2297662142265294967","title":"Somatic muscle development and sarcomere organization","description":"The Top Terms include somatic muscle development, sarcomere organization, and muscle attachment, which together point to a shared role in muscle formation and structural organization. While there are a few terms related to glycosylation and ER stress, these appear ancillary to the primary muscle-focused themes. Thus, the cluster is best described as muscle development and sarcomere architecture.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007385","count":1},{"id":"GO:0016203","count":1},{"id":"GO:0060025","count":1},{"id":"GO:1900101","count":1},{"id":"GO:0007525","count":1}]},{"hash":"1546527426674782887","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0070481","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0070478","count":1},{"id":"GO:0071034","count":1}]},{"hash":"1781380439299229479","title":"SCF-Dependent Ubiquitin-Proteasome Degradation","description":"The top GO terms are dominated by ubiquitin-mediated proteolysis and SCF-dependent ubiquitination, indicating a shared function in tagging proteins for degradation via the proteasome. Although a few terms touch on cell cycle regulation and development, the strongest signal is proteostasis through the ubiquitin-proteasome system, with protein polyubiquitination and proteasomal catabolic processes central to the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":14},{"id":"GO:0042787","count":13},{"id":"GO:0000083","count":10},{"id":"GO:0000209","count":9},{"id":"GO:0071276","count":8}]},{"hash":"1140325904223801735","title":"Unknown","description":"The proteins are annotated with a mix of GO terms including Wnt signaling, telomere maintenance regulation, NF-kappaB regulation, thermoception and pain response, adipocyte differentiation, plasma membrane protein localization, and salicylic acid signaling, with no clear shared functional theme and no edges connecting proteins. This scattered functional profile makes it hard to assign a coherent label, so Unknown is most appropriate.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":6},{"id":"GO:1904357","count":4},{"id":"GO:0032088","count":4},{"id":"GO:1904908","count":4},{"id":"GO:0050955","count":4}]},{"hash":"823012283842270694","title":"Insect Development and Organ Morphogenesis","description":"The proteins are annotated with GO terms spanning germ-band shortening, mushroom body development, lymph gland development, Malpighian tubule morphogenesis, and molting cycle, indicating broad insect developmental and organ-forming programs. A few transport-related terms are present but secondary to the developmental theme, so the cluster appears to group proteins involved in diverse aspects of insect development and tissue morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0006810","count":2},{"id":"GO:0007390","count":1},{"id":"GO:0009608","count":1},{"id":"GO:0007591","count":1}]},{"hash":"1763024334491399458","title":"Unknown","description":"The Top Terms are highly heterogeneous, with diverse processes (extracellular matrix secretion, various carbohydrate metabolism, immunoglobulin production, translation regulation, DNA ADP-ribosylation, and obsolete glycosylation terms). With 28 proteins and no edges or coherent shared function, there is no clear unifying theme to label the cluster; Unknown is appropriate.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070278","count":1},{"id":"GO:0006683","count":1},{"id":"GO:0017148","count":1},{"id":"GO:0031221","count":1},{"id":"GO:0002378","count":1}]},{"hash":"1569561171052280330","title":"Membrane transport and glycosylation","description":"Most top GO terms point to transport of amino acids and sugars (D-glucose transport, L-cystine transport, amino acid homeostasis, basic amino acid export from vacuole) and dolichol-linked oligosaccharide biosynthesis, indicating a transport/metabolism/glycosylation theme. A few terms like lens development or grooming behavior appear unrelated and may reflect annotation noise, but the core signals support a transport/glycosylation cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002088","count":1},{"id":"GO:0080144","count":1},{"id":"GO:0034488","count":1},{"id":"GO:0060905","count":1},{"id":"GO:1904659","count":1}]},{"hash":"1142505317943562654","title":"Membrane trafficking and cytoskeleton regulation","description":"The terms prominently point to processes involving membrane dynamics and cytoskeletal organization, including clathrin coat assembly, regulation of actin nucleation (Arp2/3), cell-substrate junction assembly, autophagy-related membrane events, and growth factor signaling at the membrane (PDGFR\u03b2). While antibiotic biosynthesis terms appear as outliers, the majority reflect membrane trafficking and cytoskeletal regulation, justifying a cohesive label around these functions.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0061635","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0043041","count":1},{"id":"GO:0034316","count":1}]},{"hash":"1010193164835665689","title":"Nuclear RNA processing and splicing factors","description":"This cluster is dominated by RNA processing-related GO terms, especially RNA splicing (spliceosome) and general RNA splicing, plus mRNA capping and nuclear/nucleolar localization processes (ribosomal subunit export to the nucleus and protein localization to the nucleolus). These point to a cohesive theme of nuclear RNA maturation and processing, with some related transcriptional regulation signals likely reflecting broader gene-expression coordination. Confidence in this label being representative is High.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000398","count":1},{"id":"GO:0032298","count":1},{"id":"GO:0000055","count":1},{"id":"GO:1903026","count":1}]},{"hash":"250199489720801298","title":"Broad Cell Signaling and Cytoskeletal Dynamics","description":"The top GO terms point to multiple signaling pathways (PDGF receptor signaling, Rho signaling, angiotensin signaling, T cell receptor signaling) and cytoskeletal regulation (actin nucleation, JUN phosphorylation) as well as caveolin-mediated endocytosis, indicating a shared role in transducing signals and reorganizing the cytoskeleton rather than a single, narrow function. Developmental and other context terms are present but these core themes cohesively describe the cluster's biology.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0072584","count":1},{"id":"GO:0036120","count":1},{"id":"GO:0086098","count":1}]},{"hash":"880584254024464132","title":"Mitochondrial energy metabolism and metal transport","description":"The top GO terms collectively point to mitochondrial functions: proton motive force-driven ATP synthesis and ADP transport reflect oxidative phosphorylation; regulation of mitochondrial membrane potential ties to energetic state; iron import and manganese transport indicate mitochondrial metal ion handling; and the oxidative stress term (response to superoxide) aligns with mitochondrial redox balance. Fatty acid response and pyridoxal phosphate transport further support mitochondrial metabolic roles, suggesting a coherent cluster centered on mitochondrial energy production and metal/cofactor transport.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0015986","count":2},{"id":"GO:0015866","count":1},{"id":"GO:0061179","count":1},{"id":"GO:0006828","count":1}]},{"hash":"2001708432298532290","title":"Translation and Development","description":"Most represented terms are about protein synthesis (translation, translational elongation, fidelity) with several development-related terms (cardiac muscle differentiation, liver development, post-embryonic development), suggesting a cluster of genes involved in gene expression machinery that also interfaces with developmental processes. The presence of RNA processing (spliceosomal snRNP assembly, RNA hydrolysis) supports a broader role in RNA metabolism accompanying translation and development. Some outlier terms (valine catabolic process, DNA catabolic process) are less central, so the overall label reflects the dominant theme with moderate confidence.","confidence":"Medium","size":27,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006574","count":2},{"id":"GO:0055007","count":2},{"id":"GO:0006414","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1662203420615309044","title":"Metabolic and Ion Transport Cluster","description":"The proteins show strong representation of metabolic processes (glycolysis, alanine and valine catabolism, oxalate metabolism) and potassium ion transport, with additional GO terms related to redox balance and cell growth. Some developmental/reproductive terms appear, likely due to broad GO annotations, but the core signal centers on metabolism and ion transport.","confidence":"Medium","size":27,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0042853","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0045793","count":3},{"id":"GO:0021987","count":3}]},{"hash":"1861288186923866009","title":"Spliceosome and RNA Processing Machinery","description":"The cluster is dominated by GO terms tied to RNA processing and splicing (mRNA splicing via spliceosome, spliceosomal snRNP assembly, RNA processing) with additional related terms like ribosomal subunit export, suggesting a group enriched for RNA maturation activities. A few other terms (pain response, fat cell differentiation, ubiquitination) appear minor and don\u2019t define the core function. ","confidence":"Medium","size":27,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0072553","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0032298","count":1},{"id":"GO:0000055","count":1},{"id":"GO:1903026","count":1}]},{"hash":"979730983396526875","title":"Transcription and Translation Regulation with Stress Responses","description":"The cluster centers on core gene expression processes (DNA-templated transcription; translation reinitiation; preinitiation complex formation; ribosomal large subunit biogenesis) and includes stress- and growth-related responses (SOS response; response to antibiotic; response to growth hormone). It also contains components involved in organelle assembly (cytochrome complex assembly) and cytoskeletal movement (microtubule-based movement), suggesting a coordinated module linking transcription/translation to cellular growth and stress signaling.","confidence":"Medium","size":27,"edges":12,"triangles":3,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0009432","count":4}]},{"hash":"1783216668592743906","title":"Cytokine-responsive transcriptional regulators","description":"The cluster shows several GO terms tied to cytokine signaling and inflammatory responses (cellular response to interleukin-4, transforming growth factor beta stimulus, tumor necrosis factor\u2013mediated signaling, lipopolysaccharide response) and to transcription (DNA-templated transcription), suggesting proteins that link cytokine signaling to transcriptional regulation. A couple of developmental terms are present but appear less central, so the main theme is cytokine-driven signaling leading to transcriptional changes.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1107748175454345423","title":"Unknown","description":"The top GO terms are diverse and span viral processes, aging, apoptosis regulation, phosphorylation, neuronal stem cell maintenance, GTPase signaling, lysosomal enzyme secretion, RNA localization to telomeres, telomere protection, and snRNA transcription. With no edges connecting proteins and no unifying function, there is no coherent cluster theme that ties these terms together.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0043154","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0097150","count":2}]},{"hash":"498621038192757299","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1642608972189723236","title":"Embryogenesis and organogenesis","description":"This cluster centers on developmental processes\u2014gastrulation, left-right patterning, placenta/trophoblast differentiation, and cartilage morphogenesis\u2014indicating a theme of embryonic development and tissue formation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0035270","count":4}]},{"hash":"1233554220337639835","title":"Diverse substrate membrane transporters","description":"The top GO terms point to transmembrane transport across a wide range of substrates (ions like sodium and phosphate; sugars like arabinose; small molecules such as nitrate/nitrite and 4-hydroxyphenylacetate; sialic acid; xenobiotics) and even vesicular neurotransmitter loading. This pattern strongly suggests a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate class.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0098700","count":2}]},{"hash":"104593718690702440","title":"Membrane transport of ions and metabolites","description":"The top GO terms indicate transmembrane transport activities for several ions (K+, Na+) and diverse small molecules (glucose, sialic acid, trehalose, 4-hydroxyphenylacetate), plus neurotransmitter loading into synaptic vesicles. This recurring theme shows the proteins likely function as transporters or transporter-related components, suggesting a cohesive membrane transport role for the cluster. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035751","count":2},{"id":"GO:0042891","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0071332","count":1}]},{"hash":"1542883097971076371","title":"Plasma Membrane Sugar and Small-Molecule Transport","description":"This cluster is characterized by GO terms for transmembrane transport of sugars and small solutes (glucose, trehalose, fructose, ascorbate, selenite) and related metabolic and stress responses (glucose starvation), all pointing to a membrane transport/metabolism module. Peripheral terms like Toll signaling regulation appear less central to the core theme. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045752","count":2},{"id":"GO:0035377","count":2},{"id":"GO:0071332","count":1},{"id":"GO:1904659","count":1},{"id":"GO:0015771","count":1}]},{"hash":"318491926753471681","title":"Diverse Biosynthesis and Catabolism Cluster","description":"This cluster lists GO terms spanning multiple biosynthetic pathways (GMP, glutamine, tryptophan, antibiotic biosynthesis) and several catabolic processes (diacylglycerol, cellulose), plus related processes like proteolysis and cellular signaling (cAMP) and even base-excision repair. The lack of a single, cohesive function and the presence of both synthesis and breakdown pathways suggest a broad metabolic spectrum rather than a single pathway, so a label reflecting \u201cdiverse metabolic processes\u201d is most representative.","confidence":"Medium","size":27,"edges":49,"triangles":11,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0006177","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0000162","count":3}]},{"hash":"1794283231168588034","title":"Ubiquitin-Dependent Proteolysis","description":"The cluster is dominated by GO terms centered on ubiquitination and ubiquitin-mediated protein degradation (e.g., ubiquitin-dependent proteolysis, protein ubiquitination, SCF-dependent proteasomal degradation, histone catabolic turnover, and autoubiquitination), indicating a cohesive theme of proteostasis via the ubiquitin-proteasome system, with some ancillary references to ubiquitin in signaling pathways. Confidence: High","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0016567","count":8},{"id":"GO:0090073","count":7},{"id":"GO:0000083","count":7},{"id":"GO:0031146","count":7}]},{"hash":"2075390315021458858","title":"Diverse cell signaling and stress responses","description":"The top GO terms point to multiple signaling pathways (Wnt, GPCR-related) and various cellular responses to stimuli, along with processes like proteolysis, ubiquitination, transcription regulation, digestion, and differentiation. This pattern suggests a broad set of proteins involved in general signaling and stress-response functions rather than a single specific pathway, justifying a label centered on diverse signaling and responses.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0045944","count":2}]},{"hash":"1499081138619810346","title":"Post-transcriptional mRNA processing and splicing","description":"Most terms point to RNA processing and spliceosome-mediated splicing (including alternative and regulated splicing) and other post-transcriptional controls like mRNA stabilization and miRNA silencing. A single metabolic term appears incidental, but the overall theme is post-transcriptional regulation of mRNA fate.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046496","count":1},{"id":"GO:0031087","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0000380","count":1},{"id":"GO:0000381","count":1}]},{"hash":"1144307210302976469","title":"Ubiquitin-mediated JNK signaling and cell cycle regulation","description":"This set is enriched for ubiquitination-related terms (protein ubiquitination, autoubiquitination, ubiquitin-dependent protein catabolic process) and signaling regulation (positive regulation of GTPase activity; regulation of the JNK cascade), plus cell cycle and differentiation cues. Mechanical-stimulus and defense/pain terms suggest broader stress responses linked to signaling. Together, they point to a module of ubiquitin-mediated control of signaling pathways that influence cell cycle and fate.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0051865","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1198134821126677326","title":"Bone and heart development regulators","description":"Top GO terms center on bone morphogenesis and heart development, with additional signals for parathyroid gland development and osteoclast regulation, plus broader developmental signaling (Ras, GTPase). This pattern suggests a cluster of proteins involved in developmental regulation across skeletal and cardiac tissues rather than a single pathway, hence a label focusing on bone and heart development regulators.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090398","count":2},{"id":"GO:2001205","count":2},{"id":"GO:0060349","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0046580","count":2}]},{"hash":"1991079529426824349","title":"Potassium and Sodium Ion Transport in Cardiac Electrophysiology","description":"This cluster is defined by strong enrichment for potassium and sodium ion transport across the plasma membrane, plus intracellular potassium homeostasis and cardiac electrophysiology terms such as membrane repolarization and regulation of heart rate by cardiac conduction. The combination suggests a cohesive group of ion channels/transporters shaping membrane potential and atrial conduction. The presence of a testosterone response term may reflect hormonal regulation of these channels, and the mechanosensation term could relate to mechanosensitive channels involved in excitability. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097623","count":7},{"id":"GO:1990573","count":7},{"id":"GO:0030007","count":6},{"id":"GO:0010107","count":4},{"id":"GO:0033574","count":4}]},{"hash":"245110533464706408","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":1},{"id":"GO:0030422","count":1},{"id":"GO:0000395","count":1},{"id":"GO:0000389","count":1},{"id":"GO:0010087","count":1}]},{"hash":"858809524207553834","title":"Golgi-to-vacuole trafficking and Rap signaling","description":"The top GO terms point to intracellular transport to the vacuole and targeting to the vacuole, together with Rap protein signal transduction and GTPase activation, suggesting a cohesive group of proteins involved in vesicle trafficking and small GTPase\u2013mediated signaling. Some other terms (ribosome biogenesis, insulin secretion, amino acid catabolism) are present but appear peripheral to the main trafficking/signaling theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0042254","count":2}]},{"hash":"394360629933265361","title":"MHC I antigen processing and ER peptide transport","description":"The top GO terms cluster around endogenous peptide processing for MHC class I, including peptide transport from cytosol to the endoplasmic reticulum and TAP-dependent loading pathways. Additional terms related to ER-associated lipid translocation (phospholipid and ceramide movement) support a broader ER membrane-transport context that underpins antigen presentation. Some terms are more general membrane or development processes, but the strongest signal is immune-related antigen processing and ER transport.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":4},{"id":"GO:0019885","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0046968","count":3},{"id":"GO:0046967","count":3}]},{"hash":"858277737195727987","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0036205","count":1},{"id":"GO:0051865","count":1}]},{"hash":"652885658702483800","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome-related processes: translation (GO:0006412), maturation of LSU-rRNA (GO:0000470), and ribosome biogenesis (GO:0042254), pointing to a cluster enriched for ribosomal proteins and assembly factors. Other terms like transcription by RNA polymerase II or developmental signals appear less central and may reflect broader annotations. Overall, ribosome assembly and protein synthesis best captures the cluster\u2019s core function.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000470","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0001701","count":2}]},{"hash":"668305535105912693","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006261","count":2},{"id":"GO:0000467","count":2},{"id":"GO:0031047","count":2}]},{"hash":"777453245408101441","title":"Ubiquitin-Proteasome Pathway and Cell Cycle Regulation","description":"Proteins in this cluster are dominated by ubiquitin-dependent degradation pathways (ubiquitin-proteasome system, SCF complex, ERAD), along with regulation of protein ubiquitination and cell-cycle checkpoints. The presence of mitotic G1 DNA damage signaling and proliferation regulation indicates a tight link between proteostasis and cell-cycle control, with additional stress responses (cadmium, TNF signaling). This cohesive set supports a core theme around ubiquitin-mediated proteolysis governing cell-cycle and stress responses.","confidence":"High","size":26,"edges":80,"triangles":107,"max_degree":23,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0031146","count":10},{"id":"GO:0030433","count":9},{"id":"GO:0031571","count":9},{"id":"GO:1903265","count":8}]},{"hash":"2143121859925690768","title":"Bacterial lipid metabolism and cell-wall biosynthesis","description":"The proteins cluster around lipid- and envelope-related biosynthetic pathways: lipoteichoic acid biosynthesis, fatty acid biosynthesis and metabolism (including very long-chain fatty acids), menaquinone biosynthesis, and polyhydroxybutyrate biosynthesis. These themes point to bacterial membrane and cell-wall metabolism, with some catabolic routes (malonate, phenylacetate) that often accompany central lipid and energy metabolism. The combination suggests a cohesive group involved in bacterial lipid/fatty-acid pathways and envelope components, likely in Gram-positive bacteria.","confidence":"Medium","size":26,"edges":13,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009234","count":5},{"id":"GO:1902987","count":4},{"id":"GO:0070395","count":4},{"id":"GO:0042619","count":3}]},{"hash":"682274753168218411","title":"Actin dynamics and PDGF/ECM signaling","description":"This cluster is dominated by GO terms tied to actin cytoskeleton remodeling (filopodium assembly, actin nucleation, Rho signaling) and signaling pathways such as PDGF receptor signaling and ECM-cell signaling, with additional endocytosis-related terms. The combination suggests a cohesive theme of actin-driven structural changes coupled to growth factor and extracellular matrix signaling, including actin-mediated endocytosis and development. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":2},{"id":"GO:0010641","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0072584","count":1},{"id":"GO:0035426","count":1}]},{"hash":"2282646203192827612","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":14,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":4},{"id":"GO:0070409","count":3},{"id":"GO:0006207","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0070365","count":3}]},{"hash":"1654151373617144367","title":"RNA processing and ribosome biogenesis","description":"Based on the GO terms, the cluster centers on RNA maturation and processing (mRNA capping, guanine-N7 methylation, rRNA maturation including 5.8S), plus transcription-related activity (RNA polymerase I termination, DNA-templated transcription, nucleosome assembly, histone modification). This combination suggests coordination of ribosome biogenesis with transcriptional and chromatin-related processes in the nucleus; a few terms like ER-Golgi vesicle transport appear peripheral. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0006888","count":2}]},{"hash":"499418154182953584","title":"Neuronal development and autophagy","description":"The GO terms cluster around neural development (dendrite morphogenesis, cerebral cortex radial migration) and synaptic maintenance (presynaptic active zone structure), with autophagy-related processes (lipophagy, regulation of autophagosome assembly) plus a constitutive secretory pathway and ubiquitination. This suggests proteins functioning together in neural development with coordinated autophagy/secretory regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045054","count":1},{"id":"GO:0021799","count":1},{"id":"GO:0061724","count":1},{"id":"GO:2000785","count":1},{"id":"GO:0048790","count":1}]},{"hash":"1189277054597750507","title":"Fungal autophagy and vesicle trafficking","description":"This cluster centers on macroautophagy and related autophagic processes (including peroxisome autophagy) and on endosome-to-endosome transport, with additional signals from Rho GTPase\u2013mediated signaling and phosphorylation, all of which are key to vesicle trafficking and remodeling in fungi. The presence of an ascospore-type prospore membrane term suggests a fungal-specific sporulation context, aligning with the fungal autophagy/vesicle dynamics theme, though the core signal is autophagy and endomembrane trafficking.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0016236","count":2},{"id":"GO:0032120","count":2},{"id":"GO:0016242","count":2},{"id":"GO:0030242","count":2}]},{"hash":"2007291892019773609","title":"Organelle RNA processing and translation","description":"This cluster is dominated by GO terms related to organelle gene expression, especially mitochondrial translation and mitochondrial RNA metabolism (translation, regulation of mitochondrial translation, mitochondrial mRNA modification and editing, RNA modification, and related catabolic regulation). The presence of a chloroplast-nucleus signaling term also suggests inter-organelle communication. Despite one outlier term on seed dormancy, the overall pattern points to a cohesive theme of mitochondrial/chloroplast RNA processing and protein synthesis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070129","count":2},{"id":"GO:0009793","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0009451","count":2}]},{"hash":"144179872031812298","title":"DNA Replication and Transcription Machinery","description":"The cluster has strong representation of DNA-related processes: DNA replication, DNA-templated transcription, and DNA unwinding in replication, suggesting proteins involved in nuclear DNA synthesis and transcription regulation. Other terms (cell size regulation, metabolism, stress/defense responses, development) appear as secondary or broader context, but the core theme is DNA replication and transcription machinery.","confidence":"High","size":25,"edges":41,"triangles":22,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006268","count":4},{"id":"GO:0006915","count":4}]},{"hash":"1278769811977682063","title":"Chromatin modification and transcription regulation","description":"The cluster shows a cohesive theme around chromatin state and gene expression control, with GO terms on histone acetylation (H2A, H4), H3-K9 trimethylation, heterochromatin regulation, centromere assembly, and regulation of transcription elongation. Although several terms are obsolete, the dominant signal points to chromatin remodeling and transcription regulation as the core function of these proteins, with a few outliers related to immune or reproductive biology. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034508","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0043968","count":1},{"id":"GO:0006349","count":1},{"id":"GO:0097368","count":1}]},{"hash":"1256708064971707836","title":"Ribosome biogenesis and RNA processing","description":"This cluster centers on ribosome assembly and RNA maturation: terms like ribosomal small subunit biogenesis and export from the nucleus, plus mRNA capping and RNA splicing, point to a cohesive role in nuclear/nucleolar ribosome production and RNA processing. Some terms about nucleolar protein localization also support a nucleolar/RNP biogenesis theme, with a few other terms likely reflecting broader cell-cycle related processes.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0042023","count":1},{"id":"GO:1904669","count":1}]},{"hash":"1020586535716768044","title":"ECM-Driven Remodeling Signaling","description":"These terms center on signaling events that connect the extracellular matrix to cell behavior, including remodeling of bone (osteoclast development), matrix\u2013cell signaling, and growth factor\u2013driven muscle satellite cell proliferation, with accompanying roles in PDGF and Rho pathways and neutrophil recruitment. The presence of ECM signaling and tissue remodeling terms across bone, muscle, and heart contexts suggests a cohesive functional theme of remodeling and inflammation rather than a single, narrow pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032271","count":1},{"id":"GO:0010641","count":1},{"id":"GO:0008625","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0071638","count":1}]},{"hash":"798145472520177547","title":"Nuclear import/export and pore assembly","description":"Proteins in this cluster are enriched for GO terms related to transport into and out of the nucleus (NLS-bearing protein import, ribosomal protein import, mRNA export) and to assembly of the nuclear pore complex, indicating a coherent theme of nuclear transport machinery. Additional terms touching on nuclear regulation and chromatid cohesion fit within the same nuclear context, supporting the label as representative of a nuclear transport/assembly function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006607","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051292","count":6},{"id":"GO:0000060","count":6},{"id":"GO:0060188","count":6}]},{"hash":"765353001738364736","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009451","count":5},{"id":"GO:0070129","count":5},{"id":"GO:0000961","count":5},{"id":"GO:0042793","count":5},{"id":"GO:1905639","count":5}]},{"hash":"277510462579245957","title":"Unknown","description":"The protein set shows diverse, largely unrelated GO terms (pollen tube guidance, visual perception, ubiquitination, ion transport, glycosylation, folate/methotrexate transport, tRNA splicing, RISC assembly) with no single dominant function or pathway. With no network connectivity and no cohesive theme, a precise label cannot be justified.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010183","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0031398","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0006506","count":1}]},{"hash":"788201049727795992","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0042891","count":1}]},{"hash":"1970637705457992151","title":"Diverse amino acid and lipid biosynthesis","description":"This cluster features multiple metabolism- and biosynthesis-related GO terms, notably amino acid catabolic processes (L-alanine, L-kynurenine), central metabolism (oxaloacetate), and lipid/porphyrin biosynthesis (sphinganine, biotin, protoporphyrinogen IX) with fatty acid transport also represented. The presence of Notch signaling is likely an annotation outlier; overall the proteins appear tied to diverse metabolic and biosynthetic pathways, particularly amino acid and lipid-related processes.","confidence":"Medium","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":13},{"id":"GO:0097053","count":13},{"id":"GO:0007219","count":13},{"id":"GO:0019878","count":10},{"id":"GO:0033512","count":9}]},{"hash":"1775593744657346181","title":"DNA replication and mitotic cell cycle","description":"The cluster shows strong enrichment for DNA replication and DNA-templated transcription (17 hits each) and mitotic cell cycle-related terms (16 hits) including re-entry into mitotic cell cycle (15). While a few terms like dendrite morphogenesis and visual learning appear, the dominant signal is nuclear replication and cell cycle control, justifying a label centered on DNA replication and mitosis.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006260","count":17},{"id":"GO:0006351","count":17},{"id":"GO:0006915","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0019858","count":15}]},{"hash":"306453269500790046","title":"Unknown","description":"The top terms span many unrelated areas (redox and NAD+ metabolism, RNA stability regulation, protein deneddylation, T cell signaling, vitamin biosynthesis, metal stress response, plasmodesmata transport), and there are no edges linking proteins. The lack of a cohesive functional theme, plus many re-added proteins, suggests no single shared function for this cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009435","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0000338","count":2},{"id":"GO:0050852","count":2}]},{"hash":"395655198259424330","title":"Golgi organization and vesicle transport","description":"The dominant terms point to Golgi apparatus structure and intra-Golgi vesicle transport, plus general protein transport, suggesting the cluster centers on Golgi- and vesicle-trafficking functions. Additional terms related to membrane lipids (phospholipid translocation, phosphatidylcholine biosynthesis) support a membrane-traffic context, though a few mitochondrial-associated terms appear as ancillary, not core. Overall, the cluster seems cohesively tied to Golgi trafficking and related membrane processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0015031","count":1},{"id":"GO:0007030","count":1},{"id":"GO:0006891","count":1},{"id":"GO:0033227","count":1}]},{"hash":"2054977034677442602","title":"Neural Development and Transcription Regulation","description":"Many top GO terms cluster around transcriptional regulation (DNA-templated transcription, RNA Pol II transcription, transcription factor activity) and neural development (hippocampus, cerebellar cortex development, embryonic cranial skeleton morphogenesis), with a neural-response term (response to cocaine) also present. This suggests a cohesive theme of genes involved in brain development linked to transcription control.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1430317846993071002","title":"Unknown","description":"The GO terms are highly diverse (NF-kappaB regulation, pain response, adipocyte differentiation, ubiquitination, mechanosensing, vasopressin secretion, vitamin D response, telomere maintenance, mRNA stability) with no single cohesive function or pathway tying the proteins together. This suggests no clear, interpretable shared theme for a concise label.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":6},{"id":"GO:0048265","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0071260","count":5}]},{"hash":"1913010098054896878","title":"Muscle, fat, and angiogenesis differentiation regulation","description":"The cluster centers on skeletal muscle and brown fat cell differentiation and includes angiogenesis, pointing to mesoderm-derived tissue development and vascular formation. Supporting processes like regulation by hypoxia, protein localization, and ubiquitin-dependent proteolysis suggest broader regulatory control during differentiation. Some terms are less directly connected (e.g., histone methylation) or more general, so confidence is moderate.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0050873","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0010452","count":2}]},{"hash":"914581588141589038","title":"Unknown","description":"The top GO terms cover a wide, heterogeneous mix of processes (protein degradation, transcription, cell-cycle re-entry, gravitaxis, hormone signaling, cytoskeleton polarization, viral release, sensory tastes, and defense), which do not converge on a single coherent function or pathway. There isn\u2019t a clear common theme tying these proteins together, so a concise, representative label cannot be confidently assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006511","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000321","count":1},{"id":"GO:0042332","count":1},{"id":"GO:0033147","count":1}]},{"hash":"1832644374394504936","title":"Signaling Pathway Regulators","description":"This cluster is enriched for GO terms relating to regulation across multiple signaling pathways (MAP kinase activity, IGF/GH receptor signaling, calcineurin\u2013NFAT signaling, ER unfolded protein response), as well as apoptotic and migratory regulation. The proteins appear to function as modulators of various signaling cascades rather than core effectors, supporting a label of general signaling regulators.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043407","count":3},{"id":"GO:0060396","count":2},{"id":"GO:0008625","count":2},{"id":"GO:0046856","count":2},{"id":"GO:0090051","count":2}]},{"hash":"410961386260152435","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The cluster is dominated by GO terms tied to actin cytoskeleton organization and dynamics (actin filament bundle assembly; actin cytoskeleton organization), cell migration, and establishment of epithelial cell polarity, all highlighting cytoskeletal remodeling and directional movement. Additional terms (Rho signaling, mechanical stimulus response, T cell receptor signaling) point to regulated signaling linked to motility and cell polarization, while ubiquitination and NF-kappaB regulation suggest upstream modulation of these pathways. Together, these terms depict a cohesive theme of cytoskeleton-driven migration and polarity in cells.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0051017","count":4}]},{"hash":"1374169379684192111","title":"Cell cycle control and proteostasis","description":"This cluster centers on cell division processes (meiotic spindle elongation, sister chromatid separation) and their regulation, suggesting a core theme of cell cycle control. The accompanying terms relate to protein homeostasis and post-translational regulation (response to misfolded protein, protein catabolic and catalytic activity regulation, hypusine biosynthesis), indicating a broader link between maintaining proteome quality and progression through division. Despite no detected interactions (edges 0), the GO terms point to a cohesive theme around coordinating cell cycle events with proteostasis.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":2},{"id":"GO:0071218","count":2},{"id":"GO:0070262","count":1},{"id":"GO:1903538","count":1},{"id":"GO:0042176","count":1}]},{"hash":"1979295398884841157","title":"Unknown","description":"The top GO terms are highly diverse (viral process, symbiont entry into host cell, insulin signaling and catabolic processes, hormone catabolic, aerobic respiration, lifespan determination, protein heterooligomerization) with no clear shared function or pathway. The lack of interactions (edges/triangles) and the absence of a coherent theme make it impossible to assign a specific biological label to this cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0008286","count":1},{"id":"GO:0071432","count":1},{"id":"GO:0009060","count":1}]},{"hash":"1581501319937485503","title":"Neuronal development and signaling","description":"Most prominent terms relate to neurons: neuron projection development, sensory perception of taste, and positive regulation of synaptic plasticity, with intraciliary retrograde transport supporting neuronal signaling in cilia. Additional terms point to growth and metabolism (TORC1 signaling, glucose signaling) and basic protein synthesis (ribosomal biogenesis), which can support neuronal function. Overall, the cluster centers on neuronal development and communication, with supportive growth/homeostasis processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0010255","count":1},{"id":"GO:0050909","count":1},{"id":"GO:0035185","count":1}]},{"hash":"933577849069323560","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":19,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042386","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0034244","count":1},{"id":"GO:0006620","count":1},{"id":"GO:0051083","count":1}]},{"hash":"419871933063773504","title":"Embryonic organogenesis and tissue differentiation","description":"The top GO terms span development across multiple organ systems (uterus, pharyngeal system, heart field, aortic valve) and diverse lineage differentiations (GABAergic neurons, erythrocytes), pointing to a broad embryonic differentiation/organogenesis program rather than a single specific function. This supports a general label of embryonic organogenesis and tissue differentiation.","confidence":"Medium","size":24,"edges":64,"triangles":75,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":9},{"id":"GO:1901536","count":8},{"id":"GO:0060510","count":8},{"id":"GO:0090295","count":7},{"id":"GO:0060037","count":7}]},{"hash":"173875197745675974","title":"Vertebrate Development and Metabolic Regulation","description":"The top GO terms point to developmental processes (pituitary gland development, gastrulation, neuron projection development) and hormone biosynthesis regulation, plus core metabolism (glutamate and 2-oxoglutarate, folate metabolism). This suggests a cluster of proteins coordinating developmental signaling with metabolic state in vertebrates, rather than a single tight pathway, hence a broad developmental-metabolic label.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0046886","count":2},{"id":"GO:0021983","count":2},{"id":"GO:0007369","count":2},{"id":"GO:0097054","count":2}]},{"hash":"492923854944393268","title":"Translation and Ribosome Biogenesis","description":"The top GO terms center on translation, ribosome biogenesis, and translational fidelity, pointing to proteins involved in protein synthesis machinery. A couple of terms (phenylacetate catabolic process, cardiac muscle differentiation) are less directly linked and may reflect broader cellular contexts or annotation noise, but the core enrichment clearly points to ribosomal function and translation. The dense network topology also supports a cohesive set of translation-related proteins.","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0055007","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0006407","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1580106436118948164","title":"Ribosome and Translation Machinery","description":"This cluster clusters proteins primarily involved in protein synthesis: translation (GO:0006412), translational initiation (GO:0006413), and ribosomal large subunit assembly (GO:0000027). These terms indicate a ribosome/translation machinery core, despite a few background terms (transcription-related, transport, antibiotic response) that are less representative.","confidence":"High","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0043547","count":2},{"id":"GO:0099132","count":2},{"id":"GO:0099133","count":2},{"id":"GO:0006413","count":2}]},{"hash":"2198507519303825269","title":"Chromatin Remodeling and Transcription Regulation","description":"Top terms cluster around chromatin remodeling and transcription initiation, plus regulation of mRNA splicing via the spliceosome. This points to a coherent function in chromatin-mediated transcription control and RNA processing, with only a few outliers (ribosome biogenesis, kinase activation) that do not define the main theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045815","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006352","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0048025","count":2}]},{"hash":"503059244883901026","title":"Heart development and epithelial polarity signaling","description":"Proteins in this cluster are enriched for cardiac morphogenesis terms (cardiac right atrium morphogenesis; Notch signaling in heart field proliferation) and epithelial organization (establishment of epithelial cell polarity; bicellular tight junction assembly; EGFR signaling), suggesting a cohesive role in heart development coupled with epithelial junctional dynamics. Some liver/endothelial differentiation and cell cycle terms appear, but the dominant theme ties cardiac morphogenesis to epithelial polarity and signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":3},{"id":"GO:0001889","count":2},{"id":"GO:0060843","count":2},{"id":"GO:0003213","count":2},{"id":"GO:0003270","count":2}]},{"hash":"807784759506134871","title":"Diverse solute transporters","description":"The top GO terms are dominated by transmembrane transport activities for a wide range of substrates (nitrate/nitrite, arabinose, sialic acid, phosphate, xenobiotics, etc.) and even a vesicular neurotransmitter loading term, suggesting these proteins function as transporters with broad substrate specificity rather than a single enzymatic role. The cluster\u2019s connectivity is low (max degree 1) and centered on transport, supporting a label of diverse solute transporters.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0042891","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1181384485307740290","title":"RNA processing and translation regulation","description":"The top GO terms point to RNA metabolism and control of protein synthesis (mRNA polyadenylation, translation, maturation of SSU-rRNA, regulation of translation, and negative regulation of RNA splicing). A few other terms (ER protein folding, ion transport, stress responses) are more general or ancillary, but the dominant theme across the cluster is RNA processing and regulation of translation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0033119","count":1},{"id":"GO:0006417","count":1}]},{"hash":"1473605064245386152","title":"Vesicle-Mediated Protein Transport and Degradation","description":"This cluster's top GO terms center on vesicle-mediated transport, especially protein transport to vacuole via the multivesicular body sorting pathway and ubiquitin-dependent degradation, suggesting a coherent group involved in intracellular trafficking and targeting proteins for degradation. Some terms like signaling or learning are outliers but do not override the dominant vesicular/ubiquitin degradation theme.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0043328","count":1},{"id":"GO:1901998","count":1},{"id":"GO:0031954","count":1},{"id":"GO:0016192","count":1}]},{"hash":"2192269661161997991","title":"RNA Pol II Transcription Regulation","description":"The cluster is enriched for GO terms tied to transcriptional control by RNA polymerase II, including preinitiation complex assembly and negative regulation, plus broader transcription regulation themes. One GO term about ER-to-Golgi vesicle transport and another about brain development are less representative, but the majority point to gene expression regulation rather than trafficking. Despite some obsolete terms, the cohesive theme is transcription regulation.","confidence":"Medium","size":24,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:1900446","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0045898","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1841684847134272339","title":"CNS Myelination Regulators","description":"The prominent GO terms point to CNS myelination and its regulation/maintenance, implying the cluster's proteins are involved in myelin formation and homeostasis in the central nervous system. Additional terms touch on general protein processing and regulation, but do not define a separate functional theme; the myelination signal is the strongest.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031643","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0022010","count":1},{"id":"GO:0031285","count":1},{"id":"GO:0000338","count":1}]},{"hash":"1376890047265261552","title":"Immune receptor signaling and development","description":"The cluster is dominated by immune signaling terms (T cell and B cell receptor signaling, VEGF receptor signaling, NF-kappaB-related regulation) indicating receptor-mediated signal transduction in immune contexts. There are also developmental terms (corpus callosum development, embryonic cranial skeleton morphogenesis) suggesting roles in developmental processes. A few DNA replication/repair terms appear but are less central to the overall theme. Overall, the proteins seem to participate in signaling pathways with additional development-related functions. ","confidence":"Medium","size":24,"edges":4,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":16},{"id":"GO:0050852","count":16},{"id":"GO:0033138","count":16},{"id":"GO:0048701","count":15},{"id":"GO:0051092","count":15}]},{"hash":"2253518360845800065","title":"Unknown","description":"The GO terms span disparate themes including neural development (neural tube closure, forebrain development), general development (multicellular organism development, skeletal system development), mRNA splicing, and various stress responses (cadmium, ER stress/apoptosis) and immune defense, with no single cohesive biological function linking them. This makes it unclear what unifying role the cluster represents, so I assign Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1884021694303419474","title":"Cytoskeletal signaling and endocytosis","description":"This cluster centers on signaling pathways that regulate the actin cytoskeleton and membrane trafficking. Terms like Rho signaling, actin nucleation, JUN phosphorylation, and caveolin-mediated endocytosis, along with PDGF and T cell receptor signaling, suggest a theme of signal transduction tightly connected to cytoskeletal remodeling and endocytic processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0072584","count":1},{"id":"GO:0036120","count":1},{"id":"GO:0086098","count":1}]},{"hash":"648205986307242582","title":"Unknown","description":"The terms are highly diverse, spanning xenobiotic and epinephrine responses, light detection and phototransduction, hypoxia signaling, metabolism, and even telomerase assembly. This mix lacks a single coherent biological function or pathway that ties all proteins together, making a concise, meaningful label inappropriate.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0071872","count":2},{"id":"GO:0009585","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0070483","count":1}]},{"hash":"335527178105916846","title":"Wnt signaling pathway components","description":"The top GO term is GO:0016055 Wnt signaling pathway (4), suggesting the cluster is enriched for proteins involved in Wnt signaling. Other terms touch on transcriptional regulation, telomere maintenance, and various cellular processes (sensory/thermoception, pain, adipocyte differentiation, salicylic acid signaling), but the strongest coherence centers on Wnt pathway involvement. Despite no reported interactions in this set, the enrichment pattern supports labeling the cluster as containing Wnt signaling components.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0000083","count":4},{"id":"GO:1904357","count":3},{"id":"GO:0032088","count":3},{"id":"GO:1904908","count":3}]},{"hash":"1268543826701147355","title":"Cell wall biosynthesis and septation","description":"This cluster is dominated by GO terms related to cell wall organization, chitin biosynthesis, septum formation and cytokinesis (e.g., division septum site selection, septum digestion after cytokinesis, actomyosin contractile ring contraction), which together point to cell wall biogenesis and cell division processes. A few sensory-related terms appear as outliers, suggesting some noise or broad annotations, but the main theme is clearly cell wall synthesis and septation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":5},{"id":"GO:0016266","count":2},{"id":"GO:0006261","count":2},{"id":"GO:0000916","count":2},{"id":"GO:0050910","count":2}]},{"hash":"220265491879721561","title":"Translation and Splicing Regulation","description":"This cluster is dominated by translation-related GO terms (initiation, elongation with hypusine biosynthesis, translation, frameshifting, and regulation of termination) plus terms related to spliceosome-mediated mRNA splicing and its regulation. The combination suggests proteins involved in controlling gene expression at both translation and RNA processing steps, though there are no observed edges linking them in the network, indicating the terms describe shared annotations rather than a tight functional module.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006413","count":1},{"id":"GO:1903272","count":1},{"id":"GO:0008612","count":1},{"id":"GO:0034050","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1585936999731251706","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0045214","count":2},{"id":"GO:1901911","count":1},{"id":"GO:2000233","count":1}]},{"hash":"318697620668599048","title":"Unknown","description":"The GO terms span several unrelated cellular processes (protein transport, telomere maintenance/telomerase assembly, actin rod and chaperone-mediated complex assembly, stress responses including salt and cocaine exposure, NO biosynthesis, neuronal apoptotic regulation, and translational attenuation). There is no clear, single function or pathway tying these proteins together, so a cohesive label isn\u2019t justifiable.","confidence":"","size":23,"edges":64,"triangles":24,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0031247","count":1},{"id":"GO:0045429","count":1},{"id":"GO:0007004","count":1},{"id":"GO:1905323","count":1}]},{"hash":"878117984217597092","title":"Mitochondrial translation and tRNA aminoacylation","description":"The top GO terms are dominated by translation-related processes, especially mitochondrial tRNA charging (glycyl-tRNA, threonyl-tRNA) and overall translation, plus regulation of translational fidelity. Obsolete terms can be ignored; the cohesive theme across the cluster is components of mitochondrial protein synthesis and aminoacylation machinery.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0015966","count":1}]},{"hash":"2193295450254611942","title":"Unknown","description":"The terms span ribosome biogenesis and rRNA maturation but also lysosome targeting, transcription, development, and various signaling regulations, giving no single cohesive function for the group. ","confidence":"","size":23,"edges":21,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1900452","count":2},{"id":"GO:0031954","count":2}]},{"hash":"26387256276345801","title":"RNA processing and transcription regulation cluster","description":"This cluster is dominated by GO terms for processing of multiple RNA types (mRNA, rRNA, tRNA, primary miRNA) and regulation of RNA metabolism, with some transcription-related terms, indicating a set of RNA maturation factors linked to transcription control rather than other RNA-related functions.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0006351","count":1}]},{"hash":"1751182092618804157","title":"SRP-dependent membrane protein targeting","description":"Top GO terms emphasize SRP-dependent cotranslational targeting to membranes and related post-translational targeting, alongside chaperone-assisted folding and quality control. This points to a cluster of proteins involved in delivering nascent polypeptides to/through the membrane and assisting folding in the secretory pathway, with a few outlier terms that may reflect broader housekeeping roles or annotation noise.","confidence":"Medium","size":23,"edges":120,"triangles":302,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006616","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0090084","count":3}]},{"hash":"2193063755295925176","title":"Embryogenesis and Metabolic Regulation","description":"The top terms cluster around embryonic development (in utero embryonic development, granulocyte differentiation) alongside various metabolic and gene-expression related processes (glycolysis, folate metabolism, nitrogen utilization, spliceosome-mediated splicing, and redox detoxification). This suggests a broad set of proteins involved in developmental regulation with accompanying metabolic and RNA-processing roles, rather than a single specific pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0019740","count":3},{"id":"GO:0000380","count":3}]},{"hash":"1556322913163490631","title":"Unknown","description":"The top terms span RNA splicing (spliceosome assembly and first transesterification), cell cycle checkpoint signaling, glycogen metabolism, and DNA repair, with no connecting biological theme and zero edges between proteins. This lack of a cohesive function makes a single cohesive label inappropriate.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":1},{"id":"GO:0032515","count":1},{"id":"GO:0007094","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0000349","count":1}]},{"hash":"1469677540740893922","title":"Mitotic cell cycle progression","description":"The dominant GO terms are about mitosis, including mitotic cell cycle, G2/M transition, and cell division, indicating the proteins likely regulate entry into and progression through mitosis. Other terms point to transcriptional and mRNA stability control during division, while a single neuronal term seems unrelated to the main theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":1},{"id":"GO:0000086","count":1},{"id":"GO:1905287","count":1},{"id":"GO:0045792","count":1},{"id":"GO:0048255","count":1}]},{"hash":"1787827114539653546","title":"Unknown","description":"The top GO terms span mitochondrial membrane organization, protein targeting to mitochondrion, development/patterning, immune differentiation, chromatin modification, Rho signaling, and cell polarity, with no single cohesive function or pathway emerging to link the proteins; thus a specific, intuitive label is not apparent.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010923","count":1},{"id":"GO:0048190","count":1},{"id":"GO:0007008","count":1},{"id":"GO:0070096","count":1},{"id":"GO:0006626","count":1}]},{"hash":"1515338744676550499","title":"Neuromuscular development and Schwann cell function","description":"The cluster centers on motor neuron differentiation, neuromuscular movement, and Schwann cell-related processes (migration/regulation) with supporting neuronal components like neurofilament organization and glutamate signaling, plus related lipid biosynthesis. Although a few terms are obsolete or sporadic (e.g., fungal response), the dominant theme ties to nervous system development and peripheral nerve/muscle function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051935","count":1},{"id":"GO:0050884","count":1},{"id":"GO:1905045","count":1},{"id":"GO:0002238","count":1},{"id":"GO:0046513","count":1}]},{"hash":"759682106832661140","title":"Spliceosome-driven mRNA processing and silencing","description":"The cluster\u2019s top GO terms cluster around spliceosome-mediated mRNA processing (including alternative splicing, splicing regulation, and mRNA export) and post-transcriptional control, complemented by RNA silencing pathways (miRNA- and ncRNA-mediated). This combination points to a cohesive module of mRNA maturation and expression control after transcription, consistent with a densely interconnected protein group. ","confidence":"High","size":23,"edges":215,"triangles":1147,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0000381","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0001825","count":2}]},{"hash":"1672632373481001477","title":"Lipid and pigment biosynthesis","description":"This cluster shows GO terms tied to lipid metabolism and pigment production, including sphingolipid and mycolic acid biosynthesis, as well as melanin and retinoid (retinol/retinoic acid) biosynthesis. The shared theme appears to be biosynthetic and metabolic pathways for lipids and pigmented compounds, justifying a \u201cLipid and pigment biosynthesis\u201d label, though the terms are somewhat heterogeneous.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030148","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0008209","count":1},{"id":"GO:0006710","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1476408857181488537","title":"Cerebellar development and tyrosine phosphatase signaling","description":"The cluster centers on neural development in the cerebellum, with terms like cerebellar cortex formation and Bergmann glial cell differentiation, and shows regulation of signaling pathways (MAPK/ERK) through peptidyl-tyrosine dephosphorylation. This suggests a cohesive module where tyrosine phosphatases modulate cerebellar development and related signaling. Some immune signaling terms appear, but the dominant theme remains cerebellar neural development via tyrosine phosphatase activity.","confidence":"Medium","size":23,"edges":247,"triangles":1651,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035335","count":15},{"id":"GO:0050860","count":9},{"id":"GO:0000200","count":9},{"id":"GO:0070373","count":9},{"id":"GO:0060020","count":8}]},{"hash":"1651375410892184861","title":"Lung Development and Angiogenesis","description":"The cluster shows strong signals for organ development and vascular formation, with GO:0030324 lung development, GO:0045766 positive regulation of angiogenesis, and GO:0010763 positive regulation of fibroblast migration, suggesting a role in lung tissue morphogenesis and blood vessel formation. A few other terms (germ-line, translation regulation, viral process) are present but less representative, so the main theme is developmental and angiogenic processes.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0010763","count":2},{"id":"GO:0048137","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1888987372742340047","title":"Ribosome Biogenesis and Protein Turnover","description":"This cluster is dominated by GO terms for ribosome biogenesis, ribosomal small subunit biogenesis, maturation of SSU-rRNA, ribosome assembly, and a ribosome-associated ubiquitin-dependent protein catabolic process, plus proteasome assembly. Together these point to a group of proteins involved in ribosome production and the quality-control turnover of ribosomal components. Some stray terms (e.g., embryo sac development, xenobiotic metabolism) likely reflect annotation noise rather than core function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043248","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0000469","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0000462","count":1}]},{"hash":"237029534045629014","title":"Neuromuscular development and motor neuron function","description":"The GO terms show a coherent theme around neuromuscular processes, including somatic motor neuron differentiation, musculoskeletal movement, neuromuscular posture control, and neurofilament cytoskeleton organization, with related Schwann cell activities in axon regeneration. While a few terms are tangential, the dominant signal points to neuromuscular development and motor neuron function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051935","count":1},{"id":"GO:0050884","count":1},{"id":"GO:1905045","count":1},{"id":"GO:0002238","count":1},{"id":"GO:0046513","count":1}]},{"hash":"652777838814602864","title":"Unknown","description":"This cluster shows a mix of GO terms from immune, plant development, and various Golgi/UDP-sugar transport processes, plus obsolete entries, with no clear shared function or interactions linking the proteins. The diverse and inconsistent functional themes prevent a coherent, specific label. None","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033081","count":1},{"id":"GO:0006915","count":1},{"id":"GO:1902183","count":1},{"id":"GO:1903857","count":1},{"id":"GO:0015739","count":1}]},{"hash":"1523704799344668302","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":32,"triangles":29,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":7},{"id":"GO:0071400","count":6},{"id":"GO:0006552","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006750","count":6}]},{"hash":"1564488482482157871","title":"Unknown","description":"The GO terms cover a wide and conflicting range of processes (nucleotide metabolism, cell cycle re-entry, neural development, cardiac proliferation, Golgi inheritance, dendrite morphogenesis, cell polarity, JNK signaling, imprinting regulation, and even microbial biofilm formation), with no single cohesive function or pathway tying them together. This heterogeneity suggests no clear, interpretable cluster function to label beyond Unknown.","confidence":"","size":23,"edges":177,"triangles":686,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019858","count":23},{"id":"GO:0000320","count":23},{"id":"GO:0008542","count":23},{"id":"GO:0060044","count":23},{"id":"GO:0090170","count":23}]},{"hash":"2198370960621986363","title":"Unknown","description":"The GO terms span diverse developmental processes across many tissues (spermatogenesis, hair follicle, adrenal and kidney development, blood vessel maturation) and signaling regulation, with no dominant shared function. With no edges or coherent theme, Unknown is the appropriate label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0051798","count":1},{"id":"GO:0030325","count":1},{"id":"GO:0001955","count":1}]},{"hash":"1736756114122320092","title":"Developmental Patterning and mRNA Splicing","description":"This cluster includes GO terms tied to left-right pattern formation and various developmental processes (e.g., prostate gland development, cranial skeletal system development, glomerular endothelium development) alongside strong signals for RNA processing and spliceosome-mediated mRNA splicing. The co-occurrence suggests a theme of gene expression regulation during development, though the terms are modest in count and the cluster might reflect a broad mix of developmental and housekeeping roles. Overall, a cohesive label of development-associated patterning and RNA processing is reasonable but not highly definitive.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":2},{"id":"GO:0060743","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0000398","count":1}]},{"hash":"286222624691734406","title":"Plasma membrane amino acid transporters","description":"The top GO terms are dominated by import/transport of various amino acids across the plasma membrane (D- and L- forms: D-alanine, D-serine, L-arginine, L-ornithine, L-lysine, methionine). This points to a cluster of membrane transport proteins facilitating amino acid uptake. There are also stress-related terms (nitric oxide production, response to UV and ionizing radiation), but they appear ancillary to the core theme of amino acid transport. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042941","count":1},{"id":"GO:0042942","count":1},{"id":"GO:0097638","count":1},{"id":"GO:0097640","count":1},{"id":"GO:0097639","count":1}]},{"hash":"422138075267233382","title":"Fatty acid biosynthesis and lipid metabolism","description":"The top GO terms are dominated by fatty acid biosynthetic and long-chain fatty acid metabolic processes, along with acetyl-CoA/acetate\u2013related pathways and lipoteichoic acid biosynthesis, indicating a cohesive theme around lipid metabolism and acyl-CoA\u2013driven processes in bacteria. Additional terms for related catabolic routes (phenylacetate, malonate) and bile acid metabolism support a broader lipid/acetyl-CoA\u2013connected metabolic context. This suggests the cluster represents fatty acid production and lipid-associated metabolism rather than a single narrow pathway.","confidence":"High","size":23,"edges":48,"triangles":34,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006633","count":8},{"id":"GO:0000038","count":8},{"id":"GO:0010124","count":8},{"id":"GO:0070395","count":8},{"id":"GO:0090410","count":8}]},{"hash":"218843103711635674","title":"Unknown","description":"The top terms are a scattered mix of bacterial metabolism (histidine biosynthesis, sporulation) and vertebrate neuroendocrine processes (renin secretion, nerve growth factor production, enkephalin processing), with several obsolete GO terms and no clear shared function. Given zero edges and the lack of a cohesive theme, a specific functional label isn\u2019t justifiable.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000105","count":2},{"id":"GO:0032804","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0007323","count":1}]},{"hash":"1194522310405629046","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0018401","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0032487","count":2}]},{"hash":"689781457394129870","title":"Ribosome Biogenesis and RNA Processing","description":"The top terms cluster around preribosome assembly (90S), rRNA processing (ITS1 upstream of 5.8S), cis assembly of pre-catalytic spliceosome, and antisense RNA metabolism, all pointing to ribosome production and RNA maturation in the nucleolus. A few outliers related to DNA damage signaling or apoptosis are present but do not define the main theme. Confidence is High.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072423","count":1},{"id":"GO:0000464","count":1},{"id":"GO:0006378","count":1},{"id":"GO:1903220","count":1},{"id":"GO:0042868","count":1}]},{"hash":"1928641006340021795","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0060013","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000961","count":1}]},{"hash":"2104053905059363022","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905267","count":1},{"id":"GO:0034965","count":1},{"id":"GO:0006379","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0001682","count":1}]},{"hash":"639597964046948056","title":"Unknown","description":"The GO terms are varied and not tied to a single coherent function: development, cell structure, metabolism, transcription regulation, and nuclear transport appear, with only a few weak connections. Without a clear shared pathway or process, the cluster does not map to a specific biological function.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061053","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0000122","count":2}]},{"hash":"1006711468327350183","title":"Carbohydrate Metabolism and Metabolic Signaling","description":"The cluster\u2019s terms converge on carbohydrate processing (mannose, fructose, canonical glycolysis) and energy-related signaling (hexokinase-dependent signaling, insulin and leptin responses), with additional stress-related terms (ischemia, ketamine). This suggests a cohesive theme around energy metabolism and metabolic signaling, rather than a single isolated function. Some terms appear peripheral or cross-kingdom, but the core signal is carbohydrate metabolism and related signaling pathways.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006013","count":1},{"id":"GO:0061621","count":1},{"id":"GO:0072655","count":1},{"id":"GO:0032024","count":1},{"id":"GO:0044320","count":1}]},{"hash":"187421162475483674","title":"Cellular regulation and signaling","description":"The cluster shows a mix of terms tied to gene expression control (mRNA processing), protein regulation (ubiquitination), cell-cycle progression, and diverse signaling responses (GTPase regulation, mechanical stimulus, vasopressin, vitamin D). This pattern points to proteins involved in broad regulatory roles rather than a single, specific pathway. The overlap across transcriptional/post-translational control and signaling suggests a general regulatory module rather than a narrowly defined function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0045444","count":2}]},{"hash":"2055361736557787873","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009451","count":1},{"id":"GO:0070129","count":1},{"id":"GO:0000961","count":1},{"id":"GO:0042793","count":1},{"id":"GO:1905639","count":1}]},{"hash":"943492515914686066","title":"Epigenetic transcription regulation","description":"The top GO terms point to chromatin modification and transcription initiation, including histone H3-K27 methylation and histone acetylation, RNA polymerase II preinitiation complex assembly, and DNA-templated transcription initiation, suggesting epigenetic control of gene expression as the core function of this cluster. Minor terms related to transcription factor activity and Notch target transcription support this theme, while isolated terms like insulin secretion or defense responses appear as outliers. Overall, the cluster seems to reflect coordinated regulation of transcription via chromatin state and transcription machinery.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0030073","count":2},{"id":"GO:0002229","count":1},{"id":"GO:0034635","count":1}]},{"hash":"2169963404690515440","title":"Neuronal Signaling and Neurodevelopment","description":"The top terms are dominated by neural signaling and development, including GPCR glutamate signaling, neurotransmitter biosynthesis, and neuroblast proliferation, suggesting a theme around nervous system signaling. Some co-occurring terms relate to general cellular housekeeping and stress responses, but the neural terms provide the strongest cohesive pattern for this cluster.","confidence":"Medium","size":22,"edges":35,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034727","count":3},{"id":"GO:0019433","count":2},{"id":"GO:0006624","count":2},{"id":"GO:0080151","count":2},{"id":"GO:0071327","count":2}]},{"hash":"563826331238639689","title":"Mitochondrial transport and membrane dynamics","description":"This cluster shows a strong mitochondrial theme: import of proteins into the mitochondrial matrix, mitochondrial membrane fission, transport of ADP and various ions/cofactors (Mn, Fe, PLP), and regulation of membrane potential, along with a reactive oxygen species response. A term about insulin secretion links to energy metabolism but does not override the dominant mitochondrial pattern. ","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":5},{"id":"GO:0030150","count":4},{"id":"GO:0090149","count":3},{"id":"GO:0015866","count":2},{"id":"GO:0061179","count":2}]},{"hash":"831514882328439774","title":"Ribosome Biogenesis and Translation","description":"The top GO terms show a strong emphasis on ribosome-related processes: translation, ribosomal large subunit biogenesis and assembly, and ribosome biogenesis in general. This points to a cluster of proteins involved in making and assembling ribosomes and facilitating protein synthesis. Other terms like protein targeting and mitochondrial intermembrane space import suggest supporting roles in directing such proteins to appropriate cellular compartments. While a few terms (DNA replication, adhesion) appear less connected, the dominant ribosome/translation theme justifies this label.","confidence":"High","size":22,"edges":19,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0050821","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0006605","count":2}]},{"hash":"625744789224378260","title":"Post-transcriptional RNA processing and translation initiation","description":"This cluster is enriched for translation initiation and preinitiation complex formation terms, along with spliceosome-mediated RNA processing and alternative splicing regulation, suggesting a role in coordinating post-transcriptional gene expression involving both RNA processing and translation control.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0006378","count":5}]},{"hash":"411716086188637349","title":"Membrane Trafficking and Cell Polarity","description":"The cluster is dominated by terms tied to vesicle transport and membrane remodeling (endosome to Golgi transport; endocytic recycling; prospore membrane formation) and regulation of cell shape/polarity, suggesting a cohesive theme around membrane trafficking and polarity during morphogenesis. A few terms (negative regulation of transcription, skeletal development) are outliers, likely annotation noise or multifunctionality, but do not override the central trafficking/polarity signal. ","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0051044","count":1},{"id":"GO:0032120","count":1},{"id":"GO:2000769","count":1},{"id":"GO:0034498","count":1}]},{"hash":"1823842790550046578","title":"Meiosis: chromosome pairing and segregation","description":"The cluster is enriched for terms related to meiosis, including synaptonemal complex assembly, meiotic chromosome condensation, centromeric cohesion, spindle attachment to meiosis I kinetochore, telomere tethering to the nuclear envelope, and male meiosis I, indicating a cohesive meiotic chromosomal regulation program in germ cells.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072520","count":2},{"id":"GO:0045876","count":2},{"id":"GO:0007130","count":2},{"id":"GO:0070197","count":2},{"id":"GO:1990414","count":2}]},{"hash":"2024686068349091072","title":"Environmental Stress and Developmental Regulation","description":"The terms emphasize responses to environmental stress (intracellular oxygen homeostasis, redox/oxidation, heat, UV protection) together with developmental regulation (root meristem growth, post-embryonic development, hair cell differentiation, mitochondrial translation). The cluster seems to collect proteins involved in broad stress response and developmental signaling rather than a single specific function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032364","count":1},{"id":"GO:1901874","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0010082","count":1}]},{"hash":"289893321814985172","title":"Nutrient Sensing and Translation Stress Response","description":"Reasoning: TORC1 signaling and rapamycin response suggest nutrient sensing; amino acid starvation and valine/isoleucine biosynthesis point to metabolism; IRES-dependent translation, RNA processing, and stress granule localization indicate coordinated control of gene expression under stress.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0009097","count":2},{"id":"GO:0009099","count":2},{"id":"GO:1990928","count":1},{"id":"GO:0075522","count":1}]},{"hash":"2235476344287332629","title":"mRNA Decay and Translation","description":"This cluster shows strong representation of mRNA turnover and processing (nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; positive/negative regulation of this decay; pre-mRNA cleavage for polyadenylation) alongside cytoplasmic translation, pointing to a cohesive theme of mRNA metabolism and protein synthesis. Some stress- or development-related terms appear, but they do not outweigh the central mRNA processing/decay signal. Confidently labeled as mRNA decay and translation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":1},{"id":"GO:0097403","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0098789","count":1},{"id":"GO:1904628","count":1}]},{"hash":"224231281917948772","title":"Actin dynamics and cell polarity signaling","description":"The cluster is enriched for actin-related processes: positive regulation of actin filament polymerization, stress fiber assembly, and formin-nucleated actin cable assembly, plus Rac signaling and cell spreading/polarity. These collectively point to coordinated actin cytoskeleton remodeling and cellular polarization, with some links to related trafficking events, supporting a label focused on actin dynamics and polarity.","confidence":"High","size":22,"edges":203,"triangles":1062,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051496","count":7},{"id":"GO:0030838","count":6},{"id":"GO:1900026","count":6},{"id":"GO:0032258","count":6},{"id":"GO:0031384","count":6}]},{"hash":"1981187820004722290","title":"Neuronal signaling and dendrite morphogenesis","description":"This cluster is dominated by terms tied to neuronal function and development: visual perception, dendrite morphogenesis, potassium ion transport, and GPCR signaling desensitization, along with transcription and cell-cycle terms. The combination points to proteins involved in neuronal signaling pathways and the development/maintenance of neuronal processes, especially dendritic structures and sensory functions, with supporting regulatory and metabolic processes. Confidence: Medium","confidence":"","size":22,"edges":214,"triangles":1240,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":13},{"id":"GO:0000278","count":12},{"id":"GO:0006351","count":11},{"id":"GO:0048813","count":10},{"id":"GO:0006813","count":10}]},{"hash":"1787689317058244186","title":"Transmembrane nutrient and ion transport","description":"The top GO terms are all about transport across membranes for a variety of substrates (sodium ions, nitrite, nitrate, arabinose, phosphate, sialic acid, xenobiotics, etc.), indicating a cluster of membrane transporter proteins with broad substrate specificity. The single outlier term about neurotransmitter loading into synaptic vesicles still aligns with transporter-related activity, but the dominant signal is general membrane transport. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0098700","count":4}]},{"hash":"106627397939980330","title":"Neuronal development and synaptic signaling","description":"The top GO terms cluster around nervous system development, axon extension, dopamine receptor\u2013related signaling, and synaptic vesicle exocytosis, with supporting links to Wnt and Rac signaling that govern neural differentiation and cytoskeletal dynamics. Despite one term about yeast mating projection growth, the dominant signals emphasize neural development and neurotransmission pathways, suggesting the proteins collectively participate in neuronal differentiation and synaptic function.","confidence":"High","size":22,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0060161","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0035690","count":2}]},{"hash":"1806037478798852604","title":"Brain and endocrine development","description":"This cluster centers on brain and cranial nerve development and somatotropin-secreting cell differentiation, with supporting signals for pharyngeal/endocrine and liver-related development, suggesting a neuroendocrine developmental theme rather than a single pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0021559","count":1}]},{"hash":"1636963276606609262","title":"Translation initiation and RNA splicing regulation","description":"The cluster\u2019s top GO terms cluster around translation initiation (translation reinitiation, formation of translation preinitiation complex) and translation-level regulation (miRNA-mediated silencing by inhibition of translation), with additional signals for spliceosome-mediated alternative splicing and its regulation. This suggests a common theme of post-transcriptional RNA regulation across both translation and splicing processes, rather than a single enzymatic function. Overall, the data support a cohesive label focusing on RNA metabolism and regulation.","confidence":"High","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:0043547","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0000380","count":2}]},{"hash":"1717667763445107049","title":"Regulation of translation initiation and preinitiation complex","description":"The top GO terms are dominated by regulation of translational initiation, IRES-dependent viral translational initiation, and formation of the translation preinitiation complex, pointing to a cohesive set of proteins involved in initiating translation. A few other terms (e.g., cell cycle regulation and histone-related annotations) appear but are less representative; overall, translation initiation functions best explain the cluster\u2019s collection of proteins.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034508","count":1}]},{"hash":"1128265452778306531","title":"Unknown","description":"The Top Terms are diverse and spread across organ development (lung, liver), plant-related processes (cell wall organization, alkaloid metabolism) and general processes like glycosylation and antibiotic response, with no clear, single biological theme tying the 22 proteins together. The lack of any edges or cohesive functional pattern supports labeling this cluster as Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":3},{"id":"GO:0035269","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1905631309008685270","title":"Neurodevelopment and Synaptic Signaling","description":"These proteins show a strong enrichment for nervous system development and synaptic-related terms: ventral spinal cord development, camera-type eye development, neurotransmitter secretion, receptor clustering, and Notch signaling regulation. Although a few terms touch on muscle differentiation or chromatin modification, the dominant theme is neural development and synaptic processes, justifying the label. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045746","count":2},{"id":"GO:0021517","count":2},{"id":"GO:0043010","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0043113","count":2}]},{"hash":"2097503466846681223","title":"Unknown","description":"The top GO terms are scattered across megakaryocyte/platelet development, various differentiation pathways, and general stress response/ DNA damage signaling, with no clear single functional theme or strong connectivity, so a precise, confident label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035855","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0043969","count":1},{"id":"GO:0043618","count":1},{"id":"GO:0045466","count":1}]},{"hash":"1173448522937575665","title":"Neuroimmune signaling and synaptic development","description":"This cluster shows a mix of innate immune terms (innate immune response, LPS-mediated signaling, defense against Gram-positive bacteria) with neural development and synaptic terms (axonogenesis, corpus callosum development, positive regulation of synapse assembly) and dopamine/pain-related responses, suggesting neuroimmune cross-talk that ties immune signaling to brain development and synaptic function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0061368","count":3}]},{"hash":"1976409638013802460","title":"Lipid Catabolism and Endocannabinoid Signaling","description":"The top GO terms are dominated by lipid-related catabolic processes (triglyceride, monoacylglycerol, and phospholipid catabolism) and a lipid-signaling connection (regulation of endocannabinoid signaling). While there are a few non-lipid metabolism terms (chlorophyll/alkaloid degradation, antibiotic biosynthesis), the strongest common theme ties to lipid breakdown and lipid-mediated signaling. This suggests the cluster represents enzymes involved in lipid metabolism and related signaling pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0006660","count":4},{"id":"GO:2000124","count":4},{"id":"GO:0017000","count":4}]},{"hash":"12068818456433514","title":"Transcription and Vesicle Trafficking Regulators","description":"The terms show both transcriptional regulation (DNA-templated transcription) and multiple aspects of endomembrane dynamics and signaling (endomembrane system organization, ARF signaling, receptor recycling, cell polarity establishment), with additional entries relating to inflammatory signaling and wound healing. This points to a cohesive theme centered on coordinating gene expression with vesicle trafficking and polarity, rather than a single enzymatic function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0034260","count":1},{"id":"GO:0010256","count":1},{"id":"GO:0090284","count":1},{"id":"GO:2000114","count":1}]},{"hash":"1082549507714703491","title":"RNA Methylation and Ribosome Maturation","description":"The cluster shows a clear enrichment for RNA processing and modification (guanine-N7 methylation, cap methylation, tRNA ribose methylation) and ribosome maturation (maturation of 5.8S and LSU rRNA) alongside translation (cytoplasmic translation). A few terms point to viral/host interactions, but the dominant theme centers on RNA modification and ribosome maturation, with translation as a downstream facet.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0039520","count":1},{"id":"GO:0039694","count":1}]},{"hash":"1873130368427237047","title":"Insect Neural Signaling and Behavior","description":"The top GO terms are dominated by neural signaling and behavioral phenotypes typical of insects: octopamine signaling, regulation of glutamate receptor signaling, locomotory behavior, fear and mating behaviors, and visual learning. A single term about rRNA maturation appears unrelated to the bulk of terms, suggesting some annotation noise. The lack of edges and triangles implies the proteins aren\u2019t forming a tightly connected functional module in this dataset, but the shared emphasis on neural signaling and behavior supports a unifying theme around insect neural function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":1},{"id":"GO:0048047","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0048265","count":1}]},{"hash":"1976122668005022830","title":"Nuclear RNA Export/Import","description":"Based on the top GO terms, the cluster is enriched for nuclear export of mRNA, tRNA, ribosomal subunits, and miRNA precursors, as well as hnRNP import into the nucleus, indicating a shared role in nucleocytoplasmic RNA transport and RNA-binding protein trafficking. Some terms like phototaxis and polarity specification are less related and may reflect annotation noise or multifunctionality, but the core signal points to RNA transport machinery.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0071528","count":1},{"id":"GO:0009944","count":1},{"id":"GO:0006609","count":1},{"id":"GO:0035281","count":1}]},{"hash":"1880713924533654252","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms cluster around chromatin structure and transcription control, including transcription elongation by RNA polymerase II, nucleosome positioning/density, histone modification regulation, and ncRNA-mediated gene silencing, suggesting a chromatin-associated program that modulates transcription and RNA processing.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006368","count":2},{"id":"GO:0000183","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2146113297952769476","title":"Translation and ribosome biogenesis","description":"This cluster is dominated by translation-related processes: general translation, initiation, elongation, termination, cytoplasmic translation, and selenocysteine incorporation, along with ribosome biogenesis and linked mRNA decay. These terms point to a core group of proteins involved in protein synthesis and its regulation, with a minor note of antibiotic response and glial proliferation as secondary associations.","confidence":"High","size":21,"edges":153,"triangles":559,"max_degree":18,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0046677","count":8},{"id":"GO:0006413","count":5},{"id":"GO:2000767","count":5},{"id":"GO:0000288","count":5}]},{"hash":"1267206227357788798","title":"Ubiquitination-Proteasome Regulation and Histone Ubiquitination","description":"The Top Terms show strong emphasis on ubiquitination and SCF-dependent proteasomal degradation (protein ubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, protein autoubiquitination) and histone ubiquitination (histone catabolic process, obsolete H2A ubiquitination). This points to a cluster of proteins involved in ubiquitin signaling and turnover, including chromatin-level regulation via histone ubiquitination. Additional terms like mitochondrial fission and lipid metabolism are less prevalent, suggesting they may reflect substrate scope of ubiquitin-related regulators rather than a primary function of the entire cluster.","confidence":"High","size":21,"edges":21,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0090141","count":2},{"id":"GO:0044119","count":1},{"id":"GO:0006071","count":1}]},{"hash":"968492819823650326","title":"Membrane trafficking and protein processing","description":"This cluster's GO terms cluster around membrane-associated processes: receptor-mediated endocytosis, iron import and transferrin transport, intracellular proteolysis of membrane proteins, and glycoprotein ERAD-related trimming, plus protein post-translational modification. This suggests a shared theme of membrane trafficking and protein processing rather than a single dedicated pathway, despite some outliers.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031293","count":1},{"id":"GO:0098707","count":1},{"id":"GO:0006760","count":1},{"id":"GO:0042135","count":1},{"id":"GO:1904382","count":1}]},{"hash":"1356353312870585923","title":"ER Localization and Proteasome Trafficking","description":"GO terms clustered around ER membrane localization, ER-associated degradation, ER-to-cytosol retrograde transport, endosome localization, and proteasome localization, indicating a shared theme of secretory-pathway trafficking and proteostasis via the proteasome. Some outlier terms (developmental and immune-related) may be peripheral annotations, but the dominant signal supports ER-focused trafficking and degradation. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097051","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0030970","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0010936","count":1}]},{"hash":"1437305803629948821","title":"Germline Chromatin Organization & DNA Replication","description":"The top GO terms cluster around chromatin organization and heterochromatin formation (including pericentric and silent mating-type contexts), DNA repair and DNA-templated replication, and transcription regulation, all within a germline development context (spermatocyte division, male germ-line cyst formation), suggesting a cohesive role in chromatin state maintenance during germ cell development and DNA metabolism.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048137","count":2},{"id":"GO:0048136","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0070869","count":2},{"id":"GO:0006261","count":2}]},{"hash":"1199466618516612709","title":"Membrane trafficking and calcium signaling","description":"The Top Terms include Golgi to plasma membrane transport, regulation of synaptic vesicle exocytosis, and cellular response to calcium ion, which together point to membrane trafficking and calcium-driven signaling. Additional terms reflect related signaling pathways (such as ABA signaling and mating projection growth), suggesting a core theme around vesicle transport and calcium-associated signaling, despite some outliers like spliceosomal assembly or defense responses. Overall, a cohesive label is \"Membrane trafficking and calcium signaling\" with moderate confidence.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009738","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0006893","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0031384","count":2}]},{"hash":"2199728558611815263","title":"Cytoskeletal remodeling and endosomal trafficking","description":"The cluster shows a coherent enrichment for actin-related processes (filopodium and stress fiber assembly, Rac signaling, cell spreading) and endosome localization, suggesting coordinated cytoskeletal dynamics and vesicular transport. A few terms (e.g., thiamine biosynthesis) seem unrelated noise, but the dominant theme is cytoskeletal organization and trafficking.","confidence":"Medium","size":21,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0046847","count":2},{"id":"GO:0036010","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0043552","count":2}]},{"hash":"1531754318212961934","title":"Unknown","description":"The GO terms span pain perception, brain development and morphogenesis, segmental identity, DNA recombination, behavior, ubiquitin-dependent proteolysis, inflammatory cytokine regulation, ischemia response, and axonal transport of mitochondria, with no single coherent function or pathway linking them. The lack of clear enrichment or interactions (edges/triangles) suggests the proteins do not form a unified functional cluster, so a generic Unknown label with None confidence is appropriate.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":1},{"id":"GO:0021670","count":1},{"id":"GO:0048853","count":1},{"id":"GO:0007385","count":1},{"id":"GO:0006310","count":1}]},{"hash":"1060391475567469267","title":"Embryonic development and morphogenesis","description":"This cluster centers on developmental processes and tissue morphogenesis, including endocrine organ development, placental/trophoblast differentiation, cartilage formation, EMT in heart cushion formation, and left-right patterning, all coupled with intracellular signaling. The dominant theme is developmental morphogenesis and organogenesis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1279494015816439496","title":"Organelle mRNA Editing and Processing","description":"Dominant GO terms point to mitochondrial mRNA processing, modification, and cytidine-to-uridine editing, indicating a shared role in post-transcriptional regulation of organellar gene expression in plants. Additional terms touch on chloroplast signaling and vesicle transport, but the core signal centers on organellar RNA maturation and editing.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0009793","count":2},{"id":"GO:0009451","count":2},{"id":"GO:0000961","count":2}]},{"hash":"229790762790065797","title":"Developmental RNA Processing and Ribosome Biogenesis","description":"The cluster shows a clear emphasis on RNA metabolism (mRNA processing, splicing, translation initiation/reinitiation) and ribosome biogenesis, alongside developmental processes (multicellular organism development and embryonic cranial skeleton morphogenesis). While an apoptosis/ER stress signal appears, the dominant shared function is RNA processing and ribosome assembly aligned with developmental context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0002188","count":2}]},{"hash":"824135368009626391","title":"Spliceosome-Mediated mRNA Splicing","description":"Most represented functions are mRNA splicing via the spliceosome and regulation/alternative splicing, indicating a cluster of proteins involved in RNA processing at the level of splicing. A few terms point to ribosome biogenesis and RNA modifications, but the core theme remains spliceosome-driven splicing.","confidence":"High","size":21,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:1903955","count":1},{"id":"GO:0001522","count":1},{"id":"GO:0042254","count":1}]},{"hash":"591150960112156100","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster is dominated by GO terms related to actin cytoskeleton organization and dynamics: actin filament bundle assembly, positive/negative regulation of actin cytoskeleton reorganization, formin-nucleated actin cable assembly, and regulation of cell migration. The presence of astral microtubule organization also fits within broader cytoskeletal coordination during development (embryonic skeletal system development). Taken together, the proteins likely function together to control actin-driven remodeling and cell movement, with signaling inputs via tyrosine kinase activity regulation. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000251","count":1},{"id":"GO:1903954","count":1},{"id":"GO:0051017","count":1},{"id":"GO:0061098","count":1},{"id":"GO:1903762","count":1}]},{"hash":"1339870610357176617","title":"Nucleolar RNA Processing and Splicing","description":"The cluster shows recurrent enrichment for nucleolus localization (protein localization to nucleolus; regulation of protein localization to nucleolus) and RNA processing steps (RNA splicing; regulation of alternative splicing via spliceosome; mRNA capping). This points to a group of proteins involved in ribonucleoprotein functions and RNA maturation within the nucleolus, including mRNA capping and spliceosome-associated activities. A few terms related to other processes (e.g., chloride transport) may reflect secondary roles or annotation noise, but the dominant theme is nucleolar RNA processing.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":2},{"id":"GO:1904751","count":2},{"id":"GO:0006370","count":2},{"id":"GO:1904876","count":2},{"id":"GO:0007175","count":2}]},{"hash":"1698596989951329706","title":"Organogenesis and neural development","description":"Top terms cluster around developmental processes across tissues, including neural development (hippocampus development, positive regulation of dendrite development) and organogenesis-related events (atrial septum morphogenesis, vasculogenesis, hepatocyte homeostasis). Some terms (obsolete histone methylation, unrelated cellular responses) appear as noise, but the overall pattern points to developmental biology across organs. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097676","count":1},{"id":"GO:0021766","count":1},{"id":"GO:0071314","count":1},{"id":"GO:0003290","count":1},{"id":"GO:0098532","count":1}]},{"hash":"2079643025766796448","title":"Signaling and immune regulators","description":"The GO terms cluster around modulation of major signaling pathways (ERK cascade, PI3K/AKT signaling, TOR signaling) and negative regulation of immune processes (inflammatory response, T cell activation), along with hints of cytoskeletal regulation (ruffle assembly, actin cortical patch localization). A couple of spliceosome-related terms are present but do not define the cluster. Overall, these proteins appear to regulate signaling networks and immune cell behavior rather than a single process.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":1},{"id":"GO:0043552","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0032007","count":1},{"id":"GO:0050728","count":1}]},{"hash":"322800043273331596","title":"Neuronal synaptic signaling and dendrite development","description":"Based on the top GO terms, the cluster is enriched for neural functions\u2014social behavior, chemical synaptic transmission, and dendrite development\u2014pointing to a theme of neuronal signaling and neuron maturation. Other terms such as regulation of Rho signaling and protein dephosphorylation suggest cytoskeletal remodeling and signaling relevant to synapse formation. Although some terms relate to tight junctions and Golgi localization, the strongest signal is neural, supporting a cohesive neuronal function cluster.","confidence":"Medium","size":21,"edges":19,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0035176","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0070830","count":5},{"id":"GO:0051683","count":5},{"id":"GO:0008285","count":5}]},{"hash":"2184130795978878395","title":"Unknown","description":"The GO terms for this cluster are highly diverse (proteasome assembly, mRNA processing, hypoxia and pain responses, telomere maintenance, adipocyte differentiation, membrane protein localization), showing no single cohesive function that ties the proteins together.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070682","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0071456","count":3},{"id":"GO:1904357","count":2},{"id":"GO:0032088","count":2}]},{"hash":"110207115196215760","title":"Lipid and Steroid Metabolism","description":"The top GO terms cluster around lipid and steroid-related biosynthesis and metabolism: sphingolipid biosynthesis, methyl-branched fatty acid biosynthesis, retinol metabolism, and androgen metabolic and catabolic processes. Melanin biosynthesis also appears, suggesting pigment-related metabolism, while lung development may reflect retinoid signaling or tissue-specific roles of these pathways. Taken together, the dominant theme is metabolism of lipids and steroid-like molecules, with pigment synthesis as a related but secondary facet.","confidence":"Medium","size":21,"edges":121,"triangles":270,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":18},{"id":"GO:0042619","count":11},{"id":"GO:0030324","count":10},{"id":"GO:0030148","count":9},{"id":"GO:0042572","count":9}]},{"hash":"875598718678755240","title":"Neural development and apoptosis","description":"The cluster includes terms tied to neural development (spinal cord development) and apoptosis in neurons and glial cells (neuron apoptotic process, glial cell apoptotic process), suggesting a neural development and cell-death theme. While other terms (growth hormone response, nutrient response, RNA methylation, GTPase regulation, mitotic transition) are more general, the neural development/apoptosis signals dominate. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060416","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1423957854601758333","title":"Innate antiviral immunity and autophagy","description":"The top terms center on defense against viruses and innate immune responses, with autophagy and regulation of inflammasome activity suggesting an antiviral immunity module linked to autophagic processes. A few terms related to other processes (bone formation, morphogenesis, ERAD) appear as noise but do not change the overall theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0006914","count":1}]},{"hash":"1212751579229009611","title":"Isoprenoid and Carbohydrate Biosynthesis","description":"This cluster is centered on biosynthetic processes, especially isoprenoid production (IPP via MEP and mevalonate pathways, farnesyl diphosphate, cholesterol biosynthesis) and various carbohydrate metabolism steps (galactitol, galacturonate, GDP-L-fucose salvage, carbohydrate phosphorylation), indicating a cohesive theme of metabolic biosynthesis combining lipid and sugar pathways.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009086","count":2},{"id":"GO:0019402","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0019288","count":2},{"id":"GO:0010142","count":2}]},{"hash":"2222720722234135445","title":"Unknown","description":"The top terms span diverse regulatory and signaling processes (pain response, fat cell differentiation, protein ubiquitination, mechanical stimulus response, vasopressin secretion, vitamin D response, telomere capping regulation, and mRNA stability regulation) with no single cohesive function linking the cluster. This suggests no specific shared theme to label the cluster with confidence.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0071260","count":2}]},{"hash":"2062503581923651466","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning neural development (amygdala, hippocampus, dendritic spine), muscle and kidney morphogenesis, post-translational modification (ISG15 conjugation, ubiquitination), protein homooligomerization, and even plant brassinosteroid signaling, with no clear single function tying the proteins together; the lack of edges further supports a non-cohesive set.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0021764","count":1},{"id":"GO:0021766","count":1},{"id":"GO:0032020","count":1},{"id":"GO:0060996","count":1}]},{"hash":"1035263406961954647","title":"Lipid and carbohydrate catabolism with signaling regulation","description":"Top GO terms show multiple catabolic processes for lipids (triglyceride, monoacylglycerol, phosphatidylserine) and carbohydrates (cellulose), plus signaling-related terms (regulation of endocannabinoid signaling, GPCR glutamate receptor signaling) and related processes. This suggests a cluster of proteins involved in metabolizing lipids and carbohydrates with linked modulation of signaling pathways, rather than a single isolated function. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":7},{"id":"GO:0019433","count":6},{"id":"GO:0006660","count":6},{"id":"GO:2000124","count":6},{"id":"GO:0052651","count":6}]},{"hash":"1197618064268057006","title":"Neuroimmune Signaling with Dopaminergic Response","description":"This cluster shows a strong innate immune signature (defense response to virus, innate immune response, MyD88-dependent TLR signaling) alongside dopaminergic signaling terms (cellular response to dopamine, positive regulation of dopamine receptor signaling) and neuronal processes (mechanical stimulus response, migration). The combination suggests a neuroimmune module where immune pathways intersect with dopamine-responsive signaling in neural cells.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:1903125","count":5},{"id":"GO:1905279","count":5},{"id":"GO:1903351","count":5}]},{"hash":"1138571265580161643","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0016446","count":1},{"id":"GO:0000734","count":1},{"id":"GO:0045876","count":1},{"id":"GO:0007613","count":1}]},{"hash":"347285132541781338","title":"Yeast ribosome biogenesis and cell division regulation","description":"The cluster centers on ribosome biogenesis and transcriptional control by RNA Pol II, suggesting active ribosome production. It also includes terms related to cell division machinery (mitotic spindle elongation, septin ring assembly) and nutrient-responsive transcriptional regulation (glucose repression, pseudohyphal growth), indicating a theme of growth-control coupling between ribosome production and cell cycle processes in yeast.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:1900461","count":1},{"id":"GO:0000433","count":1},{"id":"GO:0060963","count":1},{"id":"GO:0000921","count":1}]},{"hash":"2177261390168452612","title":"Post-transcriptional RNA processing and splicing regulation","description":"Top GO terms emphasize mRNA stability, spliceosome-mediated and alternative splicing, mRNA export, and miRNA-mediated silencing, indicating a coherent role in post-transcriptional RNA processing and regulation of gene expression. This label captures the central theme of post-transcriptional control rather than a single metabolic function.","confidence":"High","size":20,"edges":180,"triangles":991,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0048026","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0000381","count":4},{"id":"GO:1902625","count":4}]},{"hash":"1187930934636254938","title":"Unknown","description":"The top GO terms are highly heterogeneous (protein folding and stabilization; CDK regulation; interferon signaling; ERBB2 signaling; spindle pole body duplication; post-transcriptional regulation), with no clear shared biological process or pathway. The terms span different cellular contexts (yeast cell cycle to human signaling) and there are no interactions among proteins (no edges), making it not possible to assign a coherent function to this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098779","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0050821","count":1},{"id":"GO:0000079","count":1},{"id":"GO:0060334","count":1}]},{"hash":"865666864211955536","title":"Unknown","description":"The Top Terms are highly diverse, including oxidation-reduction, phospholipid dephosphorylation, antibiotic biosynthesis, oxidative detoxification, translation and ribosome assembly, xenobiotic transport, spindle orientation, secretory granule localization, and even flagellated sperm motility regulation. This lack of a common, cohesive biological function or pathway, combined with zero edges among proteins, suggests no interpretable single theme for the cluster. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0046839","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0006412","count":1}]},{"hash":"224177068079618537","title":"Central carbon metabolism and amino acid catabolism","description":"The GO terms cluster around core energy pathways (TCA cycle, glycolysis, gluconeogenesis, glyoxylate cycle) and multiple amino acid catabolic/biosynthetic processes, plus NAD precursor and vitamin biosynthesis, indicating a cohesive module of central metabolism with amino acid turnover and related regulation.","confidence":"High","size":20,"edges":140,"triangles":519,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0006096","count":5},{"id":"GO:0006552","count":4},{"id":"GO:0006094","count":4},{"id":"GO:0009436","count":4}]},{"hash":"1906445993435003729","title":"Fatty Acid Biosynthesis and Lipid Metabolism","description":"The top GO terms center on fatty acid biosynthesis (GO:0006633), very long-chain/fatty acid metabolism, and long-chain fatty acid import, with lipoteichoic acid biosynthesis also appearing. These collectively point to lipid production and fatty acid metabolic pathways, common in bacterial cell envelope maintenance. Some ancillary terms about acetyl-CoA and fermentation connect to energy metabolism feeding into lipid biosynthesis, reinforcing the lipid-focused theme. Therefore, the cluster is best described as Fatty Acid Biosynthesis and Lipid Metabolism.","confidence":"Medium","size":20,"edges":166,"triangles":779,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902987","count":5},{"id":"GO:0006633","count":4},{"id":"GO:0000038","count":4},{"id":"GO:0010124","count":4},{"id":"GO:0070395","count":4}]},{"hash":"773275432295151655","title":"Unknown","description":"The top GO terms cover a wide range of unrelated processes (immune cytokine production, synaptic vesicle endocytosis, apoptosis, Rab GTPase signaling, endocytic recycling, basal localization, insulin response, and corneocyte development) with no clear common function, and the cluster has no edges, suggesting no cohesive shared role.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035745","count":1},{"id":"GO:0048488","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0043087","count":1},{"id":"GO:0032483","count":1}]},{"hash":"1234832184381877945","title":"Androgen signaling and male reproductive development","description":"Based on the top GO terms, the cluster is enriched for steroid hormone receptor complex assembly, prostate gland development, and male sex differentiation, all hallmark features of androgen signaling and male reproductive development. While a few cell cycle and immune-related terms appear, they are less central to the main theme. Confidence in this label is Medium.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006463","count":4},{"id":"GO:0051301","count":4},{"id":"GO:1903071","count":4},{"id":"GO:0030850","count":4}]},{"hash":"2266207007505579649","title":"Ribosome Biogenesis and Translation Initiation","description":"The cluster is dominated by GO terms tied to ribosome assembly and rRNA maturation (SSU/LSU rRNA processing, 5.8S rRNA maturation, large subunit biogenesis) and translation initiation (formation of the preinitiation complex, translation reinitiation). While there is a minor signal for RNA splicing and some developmental/hypoxia-related terms, the core theme is ribosome biogenesis and the translation machinery. ","confidence":"High","size":20,"edges":13,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":8},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0042273","count":6},{"id":"GO:0000463","count":6}]},{"hash":"1045601764259127092","title":"Unknown","description":"Most terms span very different biological areas (chromatin organization, collagen breakdown, nucleotide metabolism, allantoin/urate pathways, actin dynamics, cell polarity). With no edges or triangles and only one annotation per term, there is no detectable shared function tying these proteins together. Thus Unknown with confidence None.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034724","count":1},{"id":"GO:0035551","count":1},{"id":"GO:0034396","count":1},{"id":"GO:0030574","count":1},{"id":"GO:0019428","count":1}]},{"hash":"530047752447321393","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":69,"triangles":114,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3}]},{"hash":"2107265851472297379","title":"CNS Myelination","description":"The terms show a clear focus on CNS myelination, with multiple GO terms explicitly mentioning myelination, CNS myelin maintenance, and regulation of myelination, suggesting the cluster\u2019s proteins are involved in neural myelin biology. Other terms related to ER-to-Golgi transport and oxidative-stress\u2013related apoptotic signaling appear but are less defining for this cluster\u2019s core function. Confidence is moderate due to co-occurring myelination terms alongside unrelated processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0008631","count":1},{"id":"GO:0002037","count":1},{"id":"GO:0031643","count":1}]},{"hash":"357503053503569837","title":"Cardiac and skeletal muscle differentiation with adhesion","description":"This cluster centers on muscle development, including cardiac/skeletal muscle differentiation and sarcomere organization, plus integrin- and ECM-mediated cell adhesion; it also shows related mesodermal differentiation and adhesion/platelet terms, collectively pointing to muscle formation and associated cell-matrix interactions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0014909","count":4},{"id":"GO:0048333","count":3},{"id":"GO:0055007","count":3},{"id":"GO:1990134","count":3}]},{"hash":"1603756716165567056","title":"Regulation of transcription and translation","description":"This cluster centers on GO terms for DNA-templated transcription and its regulation, plus regulation of translational initiation, indicating a core theme of gene expression control. Other terms suggest ancillary regulation in metabolism and transport, but the strongest signal is transcription/translation regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0045820","count":2}]},{"hash":"977251135266416974","title":"Chromatin Regulation and Lipid Biosynthesis","description":"The cluster includes chromatin-related terms (regulation of transcription start site selection by RNA Pol II promoter; nucleosome positioning/density; negative regulation of histone exchange and histone H3-K14 acetylation; a DNA repair pathway SDSA) alongside several lipid biosynthetic processes (hyaluronan, glycolipid, phospholipid biosynthesis, and a specific arabinopyranosyl undecaprenyl phosphate biosynthetic step). This mixture suggests two linked functional themes within the same protein group, hence a label that recognizes both chromatin dynamics and lipid metabolism. ","confidence":"Medium","size":20,"edges":17,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001178","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0060303","count":3},{"id":"GO:0045003","count":3},{"id":"GO:1900050","count":3}]},{"hash":"2230533565702094329","title":"Mitotic progression and cell proliferation regulation","description":"The top GO terms point strongly to regulation of mitosis, including G1/S and G2/M transitions and re-entry into mitosis, as well as spindle pole separation. There is also a consistent signal for negative regulation of cell proliferation, with some related regulatory processes (transcriptional control, signaling). Together, these terms suggest a cluster of proteins functioning primarily in controlling cell cycle progression and proliferation, centered on mitotic regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0016242","count":3},{"id":"GO:0050849","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0000320","count":3}]},{"hash":"852055930859111636","title":"Embryogenesis and organ patterning","description":"The cluster\u2019s GO terms predominantly point to developmental processes\u2014embryonic development (in utero), left/right pattern formation, cerebral cortex development, placenta-related differentiation, pancreatic cell development, and endocrine system development. While a few terms (e.g., tRNA methylation and obsolete oxidation-reduction) are less related, the overall theme is embryogenesis and organogenesis, especially patterning and placental/extraembryonic development.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0021987","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0030488","count":4}]},{"hash":"1383952941136265653","title":"Mitochondrial metal and cofactor transport","description":"GO terms point to transport of multiple cofactors and metals (heme, manganese, iron, pyridoxal phosphate, ADP) within mitochondria, along with regulation of mitochondrial membrane potential and responses to oxidative stress and fatty acids. A metabolic context is also suggested by the insulin/glucose-related term. Together, these terms support a cohesive theme of mitochondria-centered transport and redox/metabolic regulation.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015886","count":4},{"id":"GO:0015866","count":3},{"id":"GO:0061179","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0031921","count":3}]},{"hash":"1087368861132472907","title":"Ribosome Biogenesis and rRNA Maturation","description":"Most frequent GO terms point to ribosome biogenesis and LSU rRNA maturation (e.g., maturation of LSU rRNA, ribosome biogenesis, ribosomal large subunit assembly). While a few replication-related terms appear, the dominant signal is ribosome assembly and rRNA processing, suggesting the cluster represents proteins involved in ribosome biogenesis rather than DNA replication or metabolism.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0010569","count":2},{"id":"GO:0006267","count":1},{"id":"GO:0000027","count":1}]},{"hash":"227512308500501","title":"Biosynthesis of vitamins and secondary metabolites","description":"The top GO terms cluster around biosynthetic processes for vitamins (biotin, cobalamin, menaquinone) and antibiotic/secondary metabolite production, suggesting the proteins collectively function in small-molecule biosynthesis pathways. Additional signals like RNA methylation and detoxification appear but are likely ancillary to the core theme.","confidence":"High","size":20,"edges":15,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0009102","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0001300","count":3},{"id":"GO:0007568","count":3}]},{"hash":"496949172081348619","title":"Unknown","description":"The Top Terms span redox/oxygen homeostasis, DNA repair (nucleotide-excision and base-excision), depyrimidination, proline hydroxylation, and a sphingolipid biosynthetic process, with no clear shared function across the cluster. With zero edges and a mix of disparate processes, there isn\u2019t a cohesive theme to assign a more specific label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032364","count":1},{"id":"GO:1901874","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0090305","count":1}]},{"hash":"939919531158474183","title":"Meiosis and DNA Repair in Germ Cells","description":"The top GO terms cluster around meiotic recombination and DNA repair processes (gene conversion at mating-type locus, meiotic mismatch repair, removal of nonhomologous ends, interstrand cross-link repair) and germ cell development, plus a related DNA damage\u2013response signal (p53-mediated apoptotic signaling). While some terms like oxidative phosphorylation and embryonic development appear, the dominant theme is DNA repair/recombination and meiotic processes in germ cells, suggesting these proteins participate in maintaining genome integrity during meiosis and germline development.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048304","count":2},{"id":"GO:0007534","count":2},{"id":"GO:0007281","count":2},{"id":"GO:0000710","count":2},{"id":"GO:0000735","count":2}]},{"hash":"833370759283018967","title":"Membrane Transport and Nutrient Uptake","description":"Most terms point to membrane-associated transport (ions, sugars, lipids, teichoic acids, and cutin) and lipid translocation; a couple of terms (DNA-templated transcription, sorocarp morphogenesis) are less representative, so the label emphasizes transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042891","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0006824","count":1},{"id":"GO:0008643","count":1}]},{"hash":"110023409177803802","title":"Unknown","description":"The proteins exhibit a highly diverse mix of GO terms (kidney development, hypoxia response, memory, xenobiotic response, apoptosis, neurotransmitter secretion, bone mineralization, neuronal migration, and various metabolic processes) with no apparent shared function or network connectivity, so no coherent theme emerges to justify a more specific label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072221","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0043065","count":2}]},{"hash":"589858099831410910","title":"Fungal cell wall biosynthesis and glycosylation","description":"The proteins are tied to biosynthetic processes for fungal cell wall components and related glycosylation, including mannosyl-inositol phosphorylceramide, globoside, xyloglucan, galactoglucomannan, and mannoproteins, along with fungal-type cell wall biogenesis and division septum assembly. These terms converge on building and modifying the fungal cell wall, suggesting a cohesive functional theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051999","count":1},{"id":"GO:0036210","count":1},{"id":"GO:0001576","count":1},{"id":"GO:0009272","count":1},{"id":"GO:0009969","count":1}]},{"hash":"435067163453874313","title":"Chromatin Regulation in Development and DNA Damage Response","description":"The proteins\u2019 GO terms cluster around chromatin-level control of gene expression (DNA-templated transcription; histone modifications like H3-K27 trimethylation and H3-K4 dimethylation; regulation of histone marks), with additional links to kinase signaling (serine phosphorylation, kinase activity) and developmental contexts (heart and myotube development, liver regeneration) as well as DNA damage response. This suggests a cohesive theme of chromatin-mediated transcriptional regulation that supports development and genome stability.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0098532","count":2},{"id":"GO:0044648","count":2},{"id":"GO:1901674","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1698280235633747803","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to translation and ribosome assembly/biogenesis (translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, translational termination). A few entries reference antiviral/immune responses, but the core signal centers on ribosome production and protein synthesis, suggesting a cohesive role in ribosome machinery and translation. ","confidence":"High","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0000027","count":4},{"id":"GO:0002181","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0046677","count":3}]},{"hash":"493444884789171167","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":163,"triangles":846,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0007595","count":2}]},{"hash":"1365254848993757778","title":"Transcriptional Regulation and Redox-Apoptosis Signaling","description":"The top terms cluster around transcriptional control (negative regulation of RNA Pol II; splicing regulation), plus post-translational regulation (K29/K33-linked deubiquitination) and cellular stress responses (redox homeostasis, oxidant detoxification, apoptotic signaling). This suggests a coherent module linking gene expression regulation with protein turnover and stress-response pathways, rather than a single metabolic function. Some terms like platelet aggregation and female gonad development may reflect broader tissue-specific roles of the proteins, but the core theme appears to be transcriptional control and stress-related regulation.","confidence":"Medium","size":19,"edges":12,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0045454","count":2}]},{"hash":"979565814970021189","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019915","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0010344","count":1},{"id":"GO:0009966","count":1},{"id":"GO:0005977","count":1}]},{"hash":"2096723063746721541","title":"ER-Associated Membrane Transport and Antigen Processing","description":"This cluster centers on transmembrane transport across membranes, including xenobiotic, phospholipid, lipid-like (ceramide), and ion (chloride) transport, plus transport between the cytosol and the ER, with a specific GO term for antigen processing and presentation via MHC class Ib in the ER pathway. This suggests proteins involved in ER-associated membrane trafficking and immune-related antigen handling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0046968","count":1},{"id":"GO:0045332","count":1},{"id":"GO:0046967","count":1}]},{"hash":"1361153487087627364","title":"Sugar and lipid biosynthesis","description":"The cluster\u2019s top terms predominantly point to biosynthetic processes for glycolipids, phospholipids, glycogen, and GPI anchors, alongside glucose/sugar-related metabolism (glucose, sucrose, mannitol). This suggests a cohesive theme around sugar- and lipid-containing biomolecule synthesis and energy storage, with some redox-related metabolism (mycothiol) that fits into the broader metabolic context. Therefore, labeling as sugar- and lipid biosynthesis is appropriate.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009247","count":1},{"id":"GO:0008654","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0007631","count":1},{"id":"GO:0009744","count":1}]},{"hash":"1650273078076880655","title":"Mitochondrial protein Import and Inner-Membrane Insertion","description":"The cluster is dominated by GO terms about mitochondrial localization and import, including protein insertion into the mitochondrial inner membrane and protein targeting to mitochondrion, as well as multiple membrane transport terms (nitrite and carnitine-related transport). A few immune-related terms (MHC II biosynthesis, T cell activation) appear less coherent with the main theme and may reflect annotation noise. Overall, the data best support a function related to mitochondrial protein targeting and inner-membrane insertion.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0072321","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0009437","count":1}]},{"hash":"1037575207140763606","title":"Oocyte mRNA Localization & Transport","description":"Most terms center on localization and transport of mRNA during oogenesis, notably oskar mRNA and pole plasm localization, plus oocyte microtubule polarization. While there are broader transport and RNA processing terms (nuclear pore, tRNA export, protein transport), the strongest signal is the oocyte polarity and mRNA localization processes, suggesting a cluster of proteins involved in RNA transport/localization in the oocyte. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":1},{"id":"GO:0000184","count":1},{"id":"GO:0007318","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0008103","count":1}]},{"hash":"2270185124039030589","title":"Neuronal morphogenesis and signaling","description":"In this cluster, multiple terms point to neuronal development and structure, such as dendrite morphogenesis, bipolar cell polarity, and regulation of Golgi inheritance, along with JUN phosphorylation and visual learning, indicating a focus on neuron formation and signaling pathways. While there are some housekeeping terms (DNA replication and transcription), the neural-related terms are prevalent, justifying a neuronal morphogenesis/signaling label. ","confidence":"Medium","size":19,"edges":27,"triangles":9,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0019858","count":9},{"id":"GO:0000320","count":9},{"id":"GO:0008542","count":9}]},{"hash":"1791848250172725277","title":"Membrane transporters for ions and metabolites","description":"The top GO terms point to a core theme of membrane transport, including various ion and small-molecule transports (plasma membrane pyruvate transport, sodium-dependent organic anion transport, arsenite/antimonite transport, phosphate transport) and intracellular phosphate homeostasis. While a couple of terms touch on locomotory behavior or cytoskeletal polarity, these appear peripheral to the main transport-centric signal. This makes a label focusing on membrane transporters appropriate and specific for the cluster.","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0006849","count":1},{"id":"GO:0015699","count":1},{"id":"GO:0043251","count":1},{"id":"GO:0015700","count":1}]},{"hash":"1026008543447513977","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0002038","count":1},{"id":"GO:0098530","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0071048","count":1}]},{"hash":"467560346984201378","title":"Sphingolipid metabolism and lipid-based pigment biosynthesis","description":"This cluster shows strong enrichment for sphingolipid-related processes (e.g., myelin maintenance, sphingolipid biosynthesis) and other lipid-derived pathways such as retinol metabolism, sebaceous gland differentiation, and melanin production, linking lipid metabolism with pigment and skin/CNS-related functions.","confidence":"High","size":19,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042619","count":3}]},{"hash":"1246591464088464169","title":"Craniofacial morphogenesis and cell-cycle regulation","description":"The cluster\u2019s top GO terms center on embryonic cranial skeleton morphogenesis and core cell-cycle processes (DNA replication, centrosome cycle, transcriptional regulation), with Wnt signaling and apoptotic processes providing developmental context. This combination points to proliferating craniofacial progenitors coordinated by growth signals and transcription control.","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0007098","count":6},{"id":"GO:0010571","count":6},{"id":"GO:0006915","count":5}]},{"hash":"72060070121750489","title":"Myogenesis and cytoskeletal remodeling","description":"The top GO terms point to muscle development activities (myoblast migration, NMJ-related subsynaptic organization, BMP signaling) and extensive actin/cytoskeleton dynamics (actin filament organization, Rho signaling, mitotic actomyosin contractile ring assembly). While a couple of terms like transcription-coupled nucleotide-excision repair are less central, the prominent theme across the cluster is muscle formation and cytoskeletal regulation, suggesting a cohesive role in myogenesis and NMJ architecture.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0045951","count":2},{"id":"GO:0035023","count":1}]},{"hash":"599263207107459789","title":"RNA Pol II Transcription Regulators","description":"This cluster is dominated by GO terms for positive and negative regulation of transcription by RNA polymerase II, indicating a core function in gene expression control. Other terms like sarcomere organization and immune/developmental processes are present but less frequent, suggesting heterogeneity beyond transcription regulation. Therefore, the label highlights the primary shared function of the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0045944","count":4},{"id":"GO:0045214","count":3},{"id":"GO:0014909","count":3},{"id":"GO:0044537","count":3}]},{"hash":"1112548932006521488","title":"Methylation-Driven Transcriptional Regulation","description":"The cluster is enriched for methylation-related processes (histone H4-R3 methylation, rRNA methylation, arginine methylation) and for transcriptional regulation (negative regulation of transcription by RNA Pol II), pointing to epigenetic control of gene expression as a core theme. Additional terms related to cellular senescence and growth suggest links to cell fate and aging, while some peripheral terms may reflect broader regulatory connections or annotation noise. Overall, the set most coherently aligns with epigenetic modulation of transcription.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090398","count":3},{"id":"GO:0043985","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0046690","count":3},{"id":"GO:0009236","count":3}]},{"hash":"1239460797753693303","title":"Neurodevelopment: axon guidance and synapse formation","description":"The top GO terms point to neural development processes, including axonal fasciculation, regulation of axon guidance, corpus callosum development, and positive regulation of synapse assembly, indicating a focus on neuronal connectivity and brain structure formation. Some terms (e.g., eye morphogenesis) reflect broader developmental themes, but the strongest signal centers on axon guidance, synapse assembly, and related cytoskeletal/trafficking regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":2},{"id":"GO:0048681","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0051965","count":2}]},{"hash":"506366751735990410","title":"Unknown","description":"The listed GO terms cover pain response, fat cell differentiation, ubiquitination, mechanical stimulus response, vasopressin secretion, vitamin D response, telomere regulation, and mRNA stability, among others. The functions appear scattered across signaling, post-translational modification, metabolism, and gene regulation, with no clear unifying pathway or process, making it hard to assign a concise, representative label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0030103","count":2}]},{"hash":"1733375804297360041","title":"Embryonic Development and Organogenesis","description":"The GO terms point to embryonic differentiation and morphogenesis (placental/trophoblast development, pancreatic cell development, cartilage morphogenesis, EMT in endocardial cushion formation, left-right patterning), suggesting a cohesive theme around developmental processes; a couple of metabolic terms are present but likely ancillary. Overall, the proteins seem tied to developmental differentiation and tissue formation rather than a single metabolic or transcriptional regulation pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006096","count":1},{"id":"GO:0051156","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0060806","count":1}]},{"hash":"380600943987406763","title":"RNA Processing and Transcription","description":"This cluster's strongest signals are RNA metabolism and transcription-related: mRNA processing, transcription initiation by RNA polymerase II and III, RNA-templated transcription, and mRNA deadenylation-dependent decay, indicating a shared role in RNA synthesis/processing. A few terms about ion transport and ATP synthesis appear, likely representing multifunctional proteins or annotation noise, but the core theme centers on RNA processing and transcription machinery.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0099132","count":1},{"id":"GO:0015986","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0006281","count":1}]},{"hash":"1494261046205773139","title":"Actin Cytoskeleton Assembly and Remodeling","description":"The cluster is dominated by GO terms related to actin nucleation and filament network formation (e.g., formin-nucleated actin cables, actin nucleation, actin filament network formation) and includes related processes like myofibril assembly and centrosome maintenance, indicating a cohesive theme around actin cytoskeleton organization and remodeling across muscle, neuronal, and developmental contexts.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070649","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0051661","count":2},{"id":"GO:0045010","count":1},{"id":"GO:0072092","count":1}]},{"hash":"648747888193250879","title":"Plant cell wall polysaccharide biosynthesis","description":"The top terms are dominated by cell wall\u2013related processes (cell wall polysaccharide biosynthetic and organizing processes, arabinan biosynthesis), pointing to synthesis and structuring of plant cell walls. Other terms like alkaloid, cytokinin catabolism, and methanol metabolism suggest broader plant metabolism but are less central to the cluster\u2019s main theme. Confidence: High","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009820","count":1},{"id":"GO:0070592","count":1},{"id":"GO:0035884","count":1},{"id":"GO:1903457","count":1},{"id":"GO:0009823","count":1}]},{"hash":"1216870715002048624","title":"Golgi trafficking and vesicle transport","description":"This cluster is dominated by GO terms tied to the Golgi apparatus and vesicle trafficking (protein retention in Golgi, regulation of Golgi organization, ER-Golgi and Golgi-ER vesicle transport, and synaptic vesicle budding). While some terms are more general (ribosome biogenesis, cell division), the strongest signal is Golgi function and vesicular transport, suggesting a cohesive module for Golgi trafficking. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2},{"id":"GO:1903358","count":2}]},{"hash":"1195356351332461231","title":"Unknown","description":"Top GO terms are diverse, including bradykinin catabolic process, viral process, proton transmembrane transport, insulin signaling, aerobic respiration, lifespan determination, protein heterooligomerization, and symbiont entry into host cell, with no single shared theme. There is no clear unified function linking these terms, so a specific, representative label cannot be assigned.","confidence":"","size":18,"edges":10,"triangles":3,"max_degree":5,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0010815","count":6},{"id":"GO:0016032","count":3},{"id":"GO:1902600","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0071432","count":3}]},{"hash":"921579914063993807","title":"Organelle Translation and Transcription","description":"This cluster centers on organelle gene expression pathways, including mitochondrial translation, tRNA aminoacylation and transamidation for translation, and mitochondrial/plastid transcription events (rRNA transcription and termination). The presence of oxidative stress detoxification and response terms suggests a link between organelle protein synthesis and redox homeostasis. Overall, the common theme is organelle-encoded translation and transcription machinery with associated redox responses.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006424","count":1},{"id":"GO:0070681","count":1}]},{"hash":"1173503988797868558","title":"Chaperone-assisted folding and microtubule assembly","description":"The terms center on protein folding (GO:0006457), chaperone-mediated complex assembly (GO:0051131), and tubulin/microtubule organization (GO:0007021, GO:0043622), plus associated protein quality control via the ubiquitin-proteasome system. This points to a coherent theme of proteostasis and cytoskeletal assembly, with chaperones guiding folding and assembly of tubulin complexes. Some redox/modified-proline terms appear ancillary rather than defining the cluster.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032364","count":1},{"id":"GO:1901874","count":1},{"id":"GO:0018401","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0071629","count":1}]},{"hash":"1460708706387468666","title":"mRNA polyadenylation and deadenylation decay regulation","description":"Based on the top GO terms, this cluster centers on mRNA tailing and decay processes (polyadenylation and deadenylation-dependent decay) with regulatory roles, and includes a note of cytoplasmic translation and various stress/signal responses. Together, these suggest a group of proteins involved in post-transcriptional mRNA processing and turnover control rather than a single canonical pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0000288","count":1},{"id":"GO:0097403","count":1},{"id":"GO:0002181","count":1}]},{"hash":"2051357271846788144","title":"Protein deglutamylation cluster","description":"The top GO terms are dominated by various forms of deglutamylation (side chain, C-terminal, branching-point), indicating a shared function of removing glutamyl groups from proteins. Although there are additional terms related to coagulation and fibrinolysis, the strongest and most frequent signals point to deglytamylation-related activity as the characteristic feature of this cluster, making that a specific and representative label.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":1},{"id":"GO:0010815","count":1},{"id":"GO:0010757","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0035610","count":1}]},{"hash":"2034391543856891000","title":"Nuclear transcription machinery and RNA processing","description":"The top GO terms cluster around RNA polymerase I/II/III assembly, transcription elongation regulation, and nuclear RNA processing/surveillance, plus tethering of RNA Pol II to the nuclear periphery. While some terms (protein folding, tubulin complex assembly) are broader, the dominant theme is assembly and processing of nuclear transcription machinery and RNA maturation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031137","count":1},{"id":"GO:1990115","count":1},{"id":"GO:0032968","count":1},{"id":"GO:1990113","count":1},{"id":"GO:1990114","count":1}]},{"hash":"657687224781031365","title":"Epigenetic Transcription Regulation","description":"The terms cluster around chromatin remodeling and transcriptional control (histone deacetylation, chromatin silencing regulation, transcription from RNA Pol II promoter). Although several terms are obsolete and one outlier relates to biofilm adhesion, the dominant theme is epigenetic regulation of gene expression.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043709","count":1},{"id":"GO:1900473","count":1},{"id":"GO:0031939","count":1},{"id":"GO:0061186","count":1},{"id":"GO:1900375","count":1}]},{"hash":"1013478374588011915","title":"Mitochondrial tRNA charging and translation","description":"The top GO terms are dominated by mitochondrial aminoacyl-tRNA synthetases for multiple amino acids (lysine, aspartate, asparagine) and the general translation process, pointing to a cluster of proteins involved in mitochondrial protein synthesis and tRNA charging. Some DNA repair/replication terms appear, but the strongest signal centers on mitochondrial translation machinery.","confidence":"High","size":18,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070146","count":4},{"id":"GO:0070145","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0071915","count":4},{"id":"GO:0072581","count":4}]},{"hash":"1265316425787642490","title":"Vertebrate Development and Stress Response","description":"The GO terms cluster around vertebrate development (cerebral cortex and pituitary gland development, gastrulation) with concurrent cellular stress and turnover processes (apoptosis, ubiquitin-dependent proteolysis) and metabolic regulation (2-oxoglutarate). This suggests a broad developmental program enriched with stress response and proteostasis rather than a single specific function. ","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045793","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0048240","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0006915","count":3}]},{"hash":"1753906594257906477","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":71,"triangles":130,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:1901407","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4}]},{"hash":"1729336855063204273","title":"Drosophila eye morphogenesis and photoreceptor differentiation","description":"The top GO terms point to eye development in insects, including compound eye morphogenesis and photoreceptor differentiation, with supporting processes like cilium/melanosome transport and pigmentation that relate to eye function. While some terms touch on general cell-cycle roles, the prominent theme centers on eye formation and sensory cell maturation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035011","count":1},{"id":"GO:0035047","count":1},{"id":"GO:0045198","count":1},{"id":"GO:0048491","count":1},{"id":"GO:1905515","count":1}]},{"hash":"1875261760930478277","title":"Oxidative stress and heat-response signaling","description":"The top GO terms cluster around detoxification of cellular oxidants and responses to heat, indicating a focus on redox balance and stress signaling. Additional terms suggest related lipid signaling (prostaglandin biosynthesis) and vitamin D\u2013related responses, with some links to transcription regulation and cell cycle. This points to a cohesive theme of oxidative/thermal stress response and associated signaling rather than a single narrow function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0061408","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0033280","count":2}]},{"hash":"508312430080675386","title":"Embryonic Patterning and Tissue Development","description":"The top GO terms point to pattern formation, in utero embryonic development, brain cortex development, endocrine system development, and blood cell differentiation (erythrocyte/megakaryocyte). This suggests a broad developmental program governing tissue patterning and lineage differentiation across multiple organs rather than a single specific process.","confidence":"Medium","size":18,"edges":10,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0042391","count":3},{"id":"GO:0045654","count":3},{"id":"GO:0001701","count":3}]},{"hash":"1129509561753937092","title":"Embryonic organogenesis and neural differentiation","description":"The listed GO terms cluster around developmental processes across various tissues\u2014uterus and gonad development, heart and valve morphogenesis, pharyngeal system formation, and GABAergic neuron differentiation\u2014suggesting proteins involved in broad embryonic patterning and organ formation. Epigenetic/regulatory (DNA demethylation) and signaling (vitamin D response) terms may modulate these processes. Overall, the theme is developmental biology across multiple lineages.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0033280","count":4},{"id":"GO:1901536","count":4},{"id":"GO:0090295","count":3}]},{"hash":"1191097012311151010","title":"GTPase-regulated nuclear transport and vesicle trafficking","description":"The cluster centers on regulation of GTPase activity (both positive and negative), with nuclear transport terms like ribosomal small subunit export and protein import into the nucleus, as well as vesicle trafficking connections (Golgi to endosome, endosome to melanosome). This combination points to a set of proteins that modulate small GTPases to coordinate intracellular transport and trafficking, rather than a single static function. Some chromatin-related terms appear but are less central to the core theme of intracellular transport driven by GTPase regulation.","confidence":"Medium","size":18,"edges":24,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0006348","count":2},{"id":"GO:0043486","count":2},{"id":"GO:0034260","count":2}]},{"hash":"1692799024869529344","title":"RNA processing and ribosome biogenesis","description":"The cluster centers on nucleolar RNA metabolism, with terms like ribosomal large subunit biogenesis, assembly of preribosome, and regulation of spliceosome-mediated mRNA splicing, plus post-transcriptional gene silencing, suggesting a shared function in RNA maturation and ribosome assembly. Some terms (DNA replication, cranial skeleton morphogenesis, exploration behavior, cold response) are broader or less related and may reflect annotation noise; overall, the core theme points to RNA processing and ribosome biogenesis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0035640","count":3},{"id":"GO:0016441","count":2},{"id":"GO:0048026","count":2}]},{"hash":"959324125564280115","title":"Vesicle trafficking and mitosis","description":"The cluster is enriched for vesicle transport terms (retrograde Golgi to ER, COPII budding, endosomal vesicle fusion, multivesicular body size) alongside mitosis-related terms (mitotic cell cycle, mitotic spindle assembly, cell division, growth). This suggests a group of proteins involved in membrane trafficking that also associate with the cell division machinery, potentially coordinating trafficking during mitosis or general cell growth.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0034058","count":2},{"id":"GO:0000278","count":2}]},{"hash":"354446792449824545","title":"Embryonic neural, vascular, and bone morphogenesis","description":"The Term set centers on morphogenesis and developmental processes across multiple tissues: endothelial cell morphogenesis, optic vesicle formation, glossopharyngeal nerve morphogenesis, axon guidance via semaphorin-plexin, postganglionic parasympathetic fiber development, as well as bone ossification and osteoblast regulation. This suggests a cluster of proteins involved in coordinating tissue development rather than a single pathway, justifying a label focused on developmental morphogenesis across neural, vascular, and skeletal systems.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001028","count":1},{"id":"GO:0036083","count":1},{"id":"GO:0001886","count":1},{"id":"GO:1901299","count":1},{"id":"GO:0003403","count":1}]},{"hash":"2248381163460442300","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0045053","count":2},{"id":"GO:0000920","count":2},{"id":"GO:0006915","count":2}]},{"hash":"505598852979466631","title":"Adipogenesis and lipid metabolism","description":"This cluster is mainly driven by fat cell differentiation and lipid-related processes (sphingolipid biosynthesis, retinol and androgen metabolism), suggesting an adipogenesis/lipid metabolism theme. Some terms like telomere maintenance and mRNA processing appear less central, possibly reflecting broader cellular housekeeping functions in the set. Overall, the prominent signals point to adipocyte differentiation and lipid metabolic pathways as the core theme. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0006397","count":2}]},{"hash":"2217425744424008502","title":"Motor neuron development and axon guidance","description":"This cluster is driven by neural development signals, including motor neuron axon guidance and migration (lateral motor column), with supporting evidence from cell-matrix adhesion and Notch pathway regulation. A few terms (antibiotic biosynthesis/response and PHB biosynthesis) appear as potential noise or misannotations.","confidence":"Medium","size":18,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0045746","count":4},{"id":"GO:0017000","count":4}]},{"hash":"1224165823423433611","title":"Telomere maintenance and DNA replication","description":"The dominant GO terms point to telomere biology (telomere maintenance, capping, and localization) and core DNA processes (DNA replication, repair, and recombination), suggesting a cluster centered on genome stability and telomere maintenance. Some tRNA-related terms appear, which may reflect multifunctional proteins or annotation noise, but do not override the telomere/DNA maintenance theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008616","count":1},{"id":"GO:0101030","count":1},{"id":"GO:0006430","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0070200","count":1}]},{"hash":"2086996056251104573","title":"Motor neuron development and neuromuscular function","description":"These GO terms strongly converge on motor-neuron biology: positive regulation of neuron projection development, somatic motor neuron differentiation, neuromuscular process controlling posture, musculoskeletal movement, and neurofilament cytoskeleton organization. A couple of terms like apoptotic process or ceramide biosynthesis are peripheral. Overall, the cluster likely represents proteins involved in motor neuron development and neuromuscular control.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0051935","count":1},{"id":"GO:0050884","count":1},{"id":"GO:1905045","count":1}]},{"hash":"897494137577810857","title":"Sensory signaling and pain response","description":"The top GO terms are dominated by signaling and sensory perception: thermoception, response to pain, GPCR signaling pathway, and intracellular signal transduction. A few terms relate to proteasome assembly and telomere maintenance, which are less clearly connected to the sensory/signaling theme, suggesting a mixed functional set. Overall, the strongest shared motif points to signaling linked to sensory processes, justifying the label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0070682","count":4},{"id":"GO:1904357","count":3},{"id":"GO:0046475","count":3},{"id":"GO:0032088","count":3}]},{"hash":"1204580912737169923","title":"Fatty acid elongation and sphingolipid biosynthesis","description":"This cluster centers on lipid metabolism, with multiple terms for fatty acid elongation, unsaturated/very long-chain fatty acids, and sphingolipid biosynthesis, suggesting a shared role in lipid production. A few terms involve vesicle and endosome-to-vacuole transport, which may reflect related lipid trafficking or membrane dynamics, but the lipid biosynthesis theme dominates.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030148","count":1},{"id":"GO:0035338","count":1},{"id":"GO:0006892","count":1},{"id":"GO:0032511","count":1},{"id":"GO:0034626","count":1}]},{"hash":"1547576793270622854","title":"Unknown","description":"The top GO terms map to lipid biosynthesis, protein autoprocessing and regulation of mitochondrial fusion, general protein processing, and xylan catabolic activity, which do not form a single coherent biological theme. With no connecting function and no edges among proteins, there isn\u2019t a clear, representative label to assign beyond Unknown. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006646","count":1},{"id":"GO:0006656","count":1},{"id":"GO:0016540","count":1},{"id":"GO:0010636","count":1},{"id":"GO:0010954","count":1}]},{"hash":"2151366206618709364","title":"Unknown","description":"The GO terms include DNA and RNA repair alongside several regulatory/metabolic processes (brown fat differentiation, lipid storage, temperature homeostasis), but there is no cohesive theme linking all proteins, so a meaningful, specific label cannot be assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":1},{"id":"GO:0042245","count":1},{"id":"GO:0035553","count":1},{"id":"GO:0035552","count":1},{"id":"GO:0090335","count":1}]},{"hash":"759317365271972983","title":"RNA processing and TORC1 signaling","description":"This cluster centers on RNA metabolism and growth signaling: rRNA maturation, transcription, and mRNA transport point to gene-expression programs, while TORC1 signaling links nutrient sensing to ribosome biogenesis; additional terms point to phosphorylation-mediated regulation, reinforcing a regulatory module around RNA processing and growth control.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1826071377915905220","title":"Stem cell regulation and telomere maintenance","description":"The terms cluster around regulation of stem cell biology and aging-related processes: positive regulation of Wnt signaling, stem cell proliferation, hair cycle, telomere maintenance via telomerase, DNA strand elongation, and RNA-based regulatory processes (miRNA transcription, siRNA processing). These collectively point to a theme of stem cell fate regulation and genomic maintenance with supporting metabolic signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902895","count":1},{"id":"GO:0090399","count":1},{"id":"GO:0007004","count":1},{"id":"GO:0030177","count":1},{"id":"GO:0030422","count":1}]},{"hash":"2152184435344379905","title":"Rho/Ras GTPase Signaling in Epithelial Polarity","description":"This cluster is dominated by GO terms for small GTPase\u2013mediated signaling and specific regulation of Rho and Ras pathways, along with epithelial-related processes like bicellular tight junction assembly and establishment of epithelial cell polarity, plus EGFR signaling. While other terms (brain development, B cell maturation, IL-7 response, mitochondrial fission) appear, the core signal-transduction and epithelial organization theme ties the proteins together.","confidence":"Medium","size":17,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0070830","count":2},{"id":"GO:0007173","count":2}]},{"hash":"1938081443552599443","title":"Unknown","description":"The Top Terms cover diverse biosynthetic and metabolic processes (heme A, sphingolipid, retinol, androgen, melanin, mycolic acid) as well as autophagy of mitochondrion and a drug response term, with no single common theme binding all proteins. This lack of a cohesive function suggests there isn\u2019t a clear, interpretable label beyond Unknown. ","confidence":"","size":17,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000422","count":1},{"id":"GO:0006784","count":1},{"id":"GO:0030148","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0008209","count":1}]},{"hash":"1221551569563641227","title":"Central carbon metabolism and quinone biosynthesis","description":"The cluster centers on core energy metabolism: glycolysis and the TCA cycle, with oxaloacetate metabolism also represented. It also includes biosynthesis of quinones (phylloquinone and menaquinone), essential electron carriers linking glycolysis and respiration. Additional catabolic and antibiotic biosynthetic terms suggest a broader bacterial metabolic network but all tie back to energy production and redox balance. ","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0042372","count":4}]},{"hash":"903118462627874589","title":"Central carbon metabolism and energy production","description":"The cluster\u2019s top GO terms cluster around core metabolic pathways: the TCA cycle, L-alanine catabolism, and regulation of pyruvate decarboxylation to acetyl-CoA, plus related acetyl-CoA biosynthesis. This points to a cohesive theme of central carbon metabolism and energy generation. Some terms (DNA-templated transcription, cerebral cortex development, sperm capacitation) may reflect annotation noise or secondary roles rather than a unifying function of the cluster.","confidence":"Medium","size":17,"edges":68,"triangles":168,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":5},{"id":"GO:0006099","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0045793","count":4},{"id":"GO:0021987","count":4}]},{"hash":"841560076820136077","title":"Embryonic neural and skeletal morphogenesis","description":"This cluster is driven by strong signals for neural development (neural plate development, dorsal root ganglion development, midbrain dopaminergic neuron differentiation) and skeletal morphogenesis (cranial skeletal system development, embryonic limb joint morphogenesis), with additional embryonic processes like CNS vasculogenesis and cell-cycle regulation. Together these terms suggest proteins involved in early embryogenesis shaping neural and skeletal tissues, with broader developmental proliferation control.","confidence":"High","size":17,"edges":119,"triangles":464,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015991","count":7},{"id":"GO:0036023","count":5},{"id":"GO:1990791","count":5},{"id":"GO:1904888","count":5},{"id":"GO:0001840","count":5}]},{"hash":"1993089073865015821","title":"Mitochondrial stress-induced apoptosis","description":"The terms point to mitochondrial involvement in cell death: positive regulation of cytochrome c release from mitochondria and hydrogen peroxide\u2013mediated programmed cell death, plus regulation of protein insertion into the mitochondrial outer membrane and TGF-beta\u2013related stress responses. While a couple of terms (spliceosome change, lithium response) are less directly tied, the core theme supports mitochondrial stress signaling and apoptosis as the cluster\u2019s representative function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000388","count":1},{"id":"GO:0010226","count":1},{"id":"GO:1903645","count":1},{"id":"GO:0090200","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1910779397957721230","title":"Apoptosis and DNA Damage Checkpoint Regulation","description":"These terms cluster around cellular stress responses: regulation of apoptosis is represented by positive regulation of apoptotic process, mitochondrial fragmentation in apoptotic process, and negative regulation of intrinsic apoptotic signaling in osmotic stress; regulation of DNA damage checkpoint is also present, implying DNA damage sensing/response involvement. Additional terms related to transcriptional control and RNA metabolism (transcription antitermination, miRNA catabolic process, negative regulation of proteasomal degradation) suggest linked modulation of gene expression during stress. Taken together, the proteins likely participate in coordinating apoptosis with DNA damage response and transcriptional regulation under stress conditions.","confidence":"Medium","size":17,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":1},{"id":"GO:2000003","count":1},{"id":"GO:0043065","count":1},{"id":"GO:0043653","count":1},{"id":"GO:0060567","count":1}]},{"hash":"812384957642796056","title":"Unknown","description":"The top GO terms span several unrelated areas (mitochondrial assembly, ubiquitin-dependent trafficking/endocytosis, and multiple Drosophila oogenesis-related terms), and there are no edges linking proteins to suggest a single cohesive function. Therefore there isn\u2019t a clear, representative label for this cluster beyond Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033108","count":1},{"id":"GO:0043328","count":1},{"id":"GO:0044130","count":1},{"id":"GO:0007291","count":1},{"id":"GO:0006612","count":1}]},{"hash":"1906603395656014305","title":"Unknown","description":"The terms span diverse processes across species (Drosophila development like wing/eye fate, spermatid differentiation, plant defense, RNA modification, metabolism, unfolded protein response), with no single shared function or pathway and no network connectivity. This indicates no cohesive theme for the cluster, so Unknown with None confidence.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038005","count":1},{"id":"GO:0032815","count":1},{"id":"GO:1904211","count":1},{"id":"GO:0035311","count":1},{"id":"GO:0034620","count":1}]},{"hash":"152445304601458558","title":"DNA Repair and Replication","description":"This cluster\u2019s top GO terms are dominated by nucleotide-excision repair and DNA replication, with SOS response terms also present, implying a core DNA damage recognition/repair function. Some terms related to insulin signaling, fatty acid response, heme transport, and spliceosome regulation appear as outliers, which may reflect annotation noise or multi-function proteins rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":3},{"id":"GO:0061179","count":3},{"id":"GO:0070542","count":3},{"id":"GO:0015886","count":3},{"id":"GO:1990314","count":3}]},{"hash":"779750357953734078","title":"Lipid metabolism and cholesterol homeostasis","description":"Based on the GO terms, the cluster shows a cohesive signal for lipid biosynthesis and cholesterol handling, including ceramide metabolism, cholesterol homeostasis, phosphatidylcholine biosynthesis, and HDL particle assembly. A few terms are related to mitochondrial membrane protein processes or developmental patterning, but they are less representative. Overall, the dominant theme is lipid metabolism and cholesterol regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0010923","count":1},{"id":"GO:0048190","count":1}]},{"hash":"1854328600648211586","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":4},{"id":"GO:0071320","count":4},{"id":"GO:0006094","count":4},{"id":"GO:0006096","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1932178504025325795","title":"Unknown","description":"The GO terms are highly diverse, including visual learning, estrogen response, metabolism, endocytosis, and cell-cycle-related processes, with no dominant shared function across the cluster. Therefore no single coherent label can be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0043627","count":2},{"id":"GO:0019858","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0072584","count":1}]},{"hash":"1308466882252617749","title":"Nuclear RNA processing and telomere maintenance","description":"The top GO terms center on nuclear RNA handling (mRNA export, RNA stability regulation, nonsense-mediated decay) and telomere biology (telomere maintenance via telomerase, telomere-telomerase complex assembly, G-quadruplex DNA formation), with some cell cycle-related terms. This suggests a thematic link to nuclear RNA metabolism and genome stability, despite some outliers like lysosomal transport. Overall, the cluster best fits RNA processing combined with telomere maintenance functions.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:1904354","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0043487","count":1},{"id":"GO:0000184","count":1}]},{"hash":"696945700745470626","title":"Nucleic acid metabolism and genome maintenance","description":"This cluster combines RNA processing/maturation (5.8S rRNA maturation) and multiple tRNA aminoacylation activities (lysyl-, aspartyl-, mitochondrial), with DNA-centric functions (DNA repair, replication, recombination) and telomere-related processes (telomere capping/localization). The shared motif is involvement in nucleic acid metabolism and maintenance of genome integrity, spanning both RNA processing and DNA maintenance activities.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0006430","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0070200","count":1}]},{"hash":"757153089538287567","title":"Intracellular transport and energy metabolism","description":"The top GO terms show a mix of trafficking-related processes (post-Golgi vesicle transport; protein localization to the nuclear pore; piecemeal microautophagy of the nucleus) and energy metabolism (NADPH regeneration; proton transmembrane transport; ATP-dependent activity). This suggests a cluster where membrane transport intersects with cellular energetic regulation, though the set is somewhat heterogeneous. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0019878","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0006740","count":1},{"id":"GO:0042853","count":1}]},{"hash":"427668204946046187","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0031126","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0071897","count":2}]},{"hash":"1679125469714907464","title":"Developmental and metabolic processes","description":"The cluster features brain and liver development terms, neuron apoptotic processes, hormone response, and several metabolism-related terms (lipid hydroperoxide transport, ketone body biosynthesis, propionyl-CoA biosynthetic process), together with protein homooligomerization. This mix suggests involvement in both developmental regulation and metabolic pathways rather than a single, tightly defined function, so a broad label that captures both themes is appropriate.","confidence":"Medium","size":17,"edges":75,"triangles":167,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0009089","count":4},{"id":"GO:0051402","count":4}]},{"hash":"258795637818800453","title":"Embryonic and tissue development","description":"This cluster is characterized by developmental GO terms (forebrain development, gastrulation, multicellular organism development, skin development), indicating a common theme of embryogenesis and tissue formation. Other terms suggest signaling regulation and stress-induced apoptosis, but the predominant signal is development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007369","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0007275","count":2}]},{"hash":"979343991193603903","title":"Rab-mediated neuronal vesicle trafficking","description":"The cluster\u2019s top GO terms center on Rab signaling, endosomal vesicle fusion, Golgi-to-plasma-membrane transport, and synaptic vesicle exocytosis, with supporting terms like constitutive secretory pathway, filopodium assembly, and brain development. This combination points to a cohesive role in vesicle trafficking and secretion in neurons and developing brain tissue, justifying a label focused on Rab-regulated neuronal transport.","confidence":"High","size":17,"edges":112,"triangles":375,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":4},{"id":"GO:0010796","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0032482","count":4},{"id":"GO:0034058","count":4}]},{"hash":"484178269276507716","title":"LPS and lipid biosynthesis","description":"Top GO terms point to bacterial envelope component construction, with strong representation for lipopolysaccharide biosynthetic process, O antigen biosynthetic process, ADP-L-glycero-beta-D-manno-heptose biosynthetic process, and ether lipid biosynthetic process. This suggests proteins involved in assembling LPS and related lipid/carbohydrate pathways, consistent with a pairwise focus on outer-membrane component biosynthesis. Some other terms (galactose catabolic process, cell division) reflect broader bacterial metabolism and proliferation, while a few mammalian development terms may be annotation noise. ","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0006463","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030850","count":3}]},{"hash":"1867677670980744442","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster centers on ubiquitination and subsequent proteasomal breakdown, with terms for autoubiquitination, K48- and K6-linked ubiquitination, ERAD, and SCF-dependent proteolysis. It also includes peroxisomal matrix import via ubiquitin signaling and processes shaping growth and division (mitotic cell cycle, negative regulation of organ growth) as well as turnover of receptors like Wnt. Together these indicate a cohesive theme of ubiquitin-driven protein catabolism.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0070936","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0016558","count":4}]},{"hash":"1482262568926165777","title":"Proteostasis and Vacuolar Turnover","description":"The terms point to protein degradation (proteasomal catalysis, modification-dependent catabolism) and vacuolar processes (transport, fusion, microautophagy), suggesting a cluster enriched for proteostasis and vacuole-mediated turnover. Some RNA-processing terms are present (tRNA modifications, ribosome biogenesis) but appear ancillary to the dominant proteolysis/vacuolar theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010498","count":1},{"id":"GO:0019941","count":1},{"id":"GO:0007034","count":1},{"id":"GO:0048016","count":1},{"id":"GO:0042144","count":1}]},{"hash":"2079796455543200674","title":"Neuronal fate specification and CNS development","description":"The top GO terms are dominated by neural lineage and CNS differentiation: spinal cord motor neuron fate specification, subpallium neuron fate commitment, cerebral cortex GABAergic interneuron differentiation, and related neural development processes. While a few terms touch other organ systems (pancreas, bronchiole, TH2 differentiation), the strongest signal is neural development and neuron specification, making this label representative of the cluster\u2019s function.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0071353","count":8},{"id":"GO:0060163","count":6},{"id":"GO:0021530","count":6},{"id":"GO:0031018","count":6}]},{"hash":"1498562488518333161","title":"Regulation of cell proliferation and division","description":"The top GO terms point to core processes governing cell growth and division, including DNA-templated transcription, translation initiation, and translation reinitiation, as well as mitotic spindle assembly and APC- and SCF-mediated protein turnover. Actin cytoskeleton dynamics (Arp2/3 regulation and actin depolymerization) support division and morphological changes, while cell population proliferation is explicitly represented. Together, these suggest a cluster of proteins involved in coordinating gene expression with cell cycle progression and proliferation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0034316","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0030042","count":2}]},{"hash":"300721121899944408","title":"ER Stress and COPII Trafficking in Viral Interaction","description":"Top GO terms cluster around endoplasmic reticulum processes (ER localization, unfolded protein response, COPII vesicle budding, calcium homeostasis) and related lipid biosynthesis, with notes about host-mediated activation/suppression of viral replication. This suggests a theme of ER\u2013based stress response and vesicle trafficking involved in host\u2013virus interactions, hence the chosen label.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044829","count":1},{"id":"GO:0070972","count":1},{"id":"GO:0006987","count":1},{"id":"GO:0030968","count":1},{"id":"GO:0044791","count":1}]},{"hash":"1045650912031392391","title":"Intracellular transport and membrane trafficking regulation","description":"The cluster centers on intracellular protein transport, ER membrane organization, and regulation of endocytosis, with related terms touching vesicle trafficking and membrane-associated signaling (Ras/Rho), plus a few cell-cycle or regulatory processes. This suggests a functional grouping around membrane trafficking and its regulation rather than a single precise pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0032425","count":2},{"id":"GO:2000203","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1905433","count":2}]},{"hash":"475755410681214813","title":"Unknown","description":"The listed GO terms are highly diverse, including RNA polymerase III transcription and RNA splicing alongside hematopoietic stem cell homeostasis, kidney morphogenesis, insulin response, intestinal absorption, proteoglycan biosynthesis, and cell adhesion. There is no single dominant biological theme tying these proteins together, so a cohesive functional label cannot be confidently assigned.","confidence":"","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001023","count":1},{"id":"GO:0042797","count":1},{"id":"GO:0061484","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0006486","count":1}]},{"hash":"1332098509019143808","title":"GPCR-driven chemosensory signaling","description":"This cluster is anchored by terms tied to G protein-coupled receptor signaling and chemosensation, notably the GPCR signaling pathway and sensory perception of taste (umami and sweet). The presence of related terms such as cellular response to electrical stimulus and locomotory behavior supports a neural, sensory-motor theme where GPCRs transduce chemical cues into neuronal signaling and movement. Some terms (cytoskeleton polarity, antimicrobial processes) are less directly connected and may reflect broader annotations or secondary roles of the included proteins.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003380","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0050917","count":2},{"id":"GO:0001582","count":2},{"id":"GO:0042742","count":2}]},{"hash":"366588782139029570","title":"Developmental signaling and transcriptional regulation","description":"The top terms point to Wnt signaling and general transcriptional regulation with growth/differentiation processes (multicellular growth, fat cell differentiation) and post-translational control (ubiquitination), with additional mechanotransduction cues, suggesting a developmental signaling and gene-regulation-centric cluster rather than a single specific pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0050830","count":2}]},{"hash":"95219235107107979","title":"RNA transcription and ribosome biogenesis","description":"The cluster is dominated by GO terms for core gene expression processes: translation and ribosome biogenesis indicate protein synthesis machinery, while transcription terms across RNA polymerases I-III and RNA-templated transcription point to RNA production and processing. The presence of tRNA aminoacylation and nucleolar regulation reinforces a nucleolus/mitochondrial connection to ribosome assembly and translation. An outlier angiogenesis term (and a peripheral translesion synthesis entry) do not define the main theme, which is general gene expression machinery. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0019985","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0001172","count":1},{"id":"GO:1904750","count":1}]},{"hash":"56985846879117665","title":"Tissue Development and Differentiation","description":"The top GO terms point to a variety of tissue-specific differentiation and developmental processes (liver, megakaryocytes, keratinocytes, adipocytes, mammary epithelium, erythrocytes, thyroid hormone-related development, and embryonic hematopoiesis), suggesting a broad theme of developmental differentiation across multiple 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:0006590","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0035855","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0030521","count":1}]},{"hash":"1672029763729006226","title":"Unknown","description":"The top GO terms span taste perception (umami, bitter, sweet), skeletal muscle development, RNA processing, plant/root development terms, miRNA silencing, and cardiac muscle physiology, with no single unifying function linking the proteins. This dispersed set suggests no coherent cluster function to label beyond Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050917","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0050913","count":2},{"id":"GO:0050916","count":2},{"id":"GO:0045451","count":1}]},{"hash":"228193155504531310","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0030466","count":1},{"id":"GO:0009744","count":1},{"id":"GO:0006270","count":1},{"id":"GO:0006267","count":1}]},{"hash":"547264465947218474","title":"Drosophila oocyte polarity and axis specification","description":"The top GO terms point to oocyte nucleus localization, pole plasm protein localization, planar polarity, and polarized epithelial differentiation during ovarian development, indicating a core theme of polarity and axis formation in Drosophila oogenesis, with support from related epithelial polarity processes. Some terms (like apoptotic signaling) may reflect broader cellular stress responses but do not override the central polarity/axis theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051663","count":1},{"id":"GO:0090176","count":1},{"id":"GO:0030709","count":1},{"id":"GO:0008631","count":1},{"id":"GO:0051523","count":1}]},{"hash":"1838417088162801479","title":"Glial Activation and Neuroimmune Signaling","description":"This cluster centers on terms linked to glial function and neural-immune communication, including astrocyte activation, myelination in the peripheral nervous system, complement activation, and the calcineurin-NFAT signaling cascade, with supporting signals in phosphorylation regulation and microtubule nucleation. While a couple of terms (e.g., ascospores membrane formation, polysaccharide catabolic process) seem discordant and may reflect noise, the dominant pattern suggests glial signaling and neuroimmune modulation.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0000272","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0031284","count":2},{"id":"GO:0032120","count":2}]},{"hash":"1663541583185578557","title":"Translation machinery and mRNA turnover","description":"Based on the dominant GO terms, the cluster is enriched for processes related to protein synthesis (translation, translational initiation/termination, cytoplasmic translation) and ribosome dynamics (ribosome disassembly). The presence of deadenylation-dependent decay indicates mRNA turnover is linked to the translational machinery. A minority of terms (response to antibiotic, siRNA-mediated chromatin regulation) may reflect ancillary functions, but the strongest signal ties to ribosome-based translation and mRNA decay.","confidence":"High","size":16,"edges":36,"triangles":28,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0046677","count":4},{"id":"GO:0006413","count":3},{"id":"GO:0006449","count":2},{"id":"GO:2000767","count":2}]},{"hash":"121016107079489583","title":"Ribosome Biogenesis and Translation","description":"Dominant GO terms center on ribosome biogenesis, small subunit biogenesis, cytoplasmic translation, and ribosomal subunit export, with supporting signals from tRNA modification and cell division. This suggests the proteins cluster around the ribosome assembly and protein synthesis machinery, potentially coupled to growth and division processes. Overall, the cluster appears to represent ribosome production and translation activities, with related regulatory links to cell cycle/d division. ","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0042274","count":3},{"id":"GO:0090529","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1510333821894992423","title":"Unknown","description":"The top GO terms span both antibiotic biosynthesis (phosphinothricin biosynthesis) and broad transcription regulation (RNA polymerase II\u2013mediated, DNA-templated transcription), plus negative regulation of cell killing, which together show no single cohesive function or pathway linking the proteins. This heterogeneity makes a confident, specific label unlikely.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":1},{"id":"GO:1901766","count":1},{"id":"GO:0045944","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0031342","count":1}]},{"hash":"1298678101743526676","title":"Tissue differentiation and lineage regulation","description":"The cluster shows GO terms tied to differentiation across multiple tissues (skeletal muscle, intestinal epithelium, hematopoietic lineages) and regulatory processes such as histone methylation, mRNA splicing, ubiquitin-dependent protein degradation, and protein localization. This pattern suggests a module involved in controlling cell fate decisions and the gene-expression programs underpinning differentiation, rather than a single biochemical pathway. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":1},{"id":"GO:0010452","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0045184","count":1}]},{"hash":"488132303051059965","title":"Actin Cytoskeleton Dynamics and Assembly","description":"Features of this cluster center on actin filament nucleation and assembly (formin-nucleated actin cables) and broader actin cytoskeleton remodeling, including myofibril assembly and substrate-dependent cell migration. Some terms also touch on signaling and developmental contexts (histamine response, ureteric bud invasion), but the common theme remains actin dynamics governing structural organization and movement.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":1},{"id":"GO:0072092","count":1},{"id":"GO:0055003","count":1},{"id":"GO:0060292","count":1},{"id":"GO:0071420","count":1}]},{"hash":"1049566352976133436","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":2},{"id":"GO:0097250","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0000381","count":1},{"id":"GO:0006396","count":1}]},{"hash":"1929737362370294473","title":"Mitotic spindle assembly and kinetochore attachment","description":"The cluster is best characterized by strong mitosis-related signals: positive regulation of microtubule polymerization, mitotic sister chromatid biorientation, and positive regulation of spindle microtubule attachment to the kinetochore, pointing to spindle organization and accurate chromosome segregation. Some membrane targeting and transport terms are present but do not define the main function; they may reflect general cellular housekeeping in dividing cells. ","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031116","count":2},{"id":"GO:1990758","count":2},{"id":"GO:0051987","count":2},{"id":"GO:0006616","count":1},{"id":"GO:0006617","count":1}]},{"hash":"101797111239193929","title":"Intracellular protein quality control and transport","description":"This cluster\u2019s GO terms cluster around handling and moving proteins within the cell (protein quality control, peroxisomal import, ER-related transport, and phospholipid translocation), with a secondary theme of stress response. Although terms are diverse (cell cycle, metal ion transport), the strongest cohesive signal is protein handling and intracellular trafficking.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006515","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0034599","count":1}]},{"hash":"480403684752635949","title":"Chromosome condensation and sister chromatid cohesion","description":"The top GO terms cluster around chromosome organization during cell division\u2014mitotic and meiotic chromosome condensation, maintenance and loading of cohesin at centromeres, and sister chromatid cohesion\u2014with supporting signals for DNA replication and chromatin condensation. This coherent theme supports labeling the cluster as chromosome condensation and cohesion processes in mitosis/meiosis.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0000733","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0061780","count":2}]},{"hash":"1407009724520308391","title":"Diverse Transmembrane Transporters","description":"The GO terms indicate transport across membranes for xenobiotics, vitamins, carbohydrates, cobalt ions, teichoic acid, various lipids, and taurine, plus regulation related to cholesterol absorption. This suggests a cluster of membrane transporter proteins with diverse substrate specificities rather than a single substrate class. Therefore, the label Diverse Transmembrane Transporters captures the common function represented.","confidence":"High","size":16,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":14},{"id":"GO:0035461","count":14},{"id":"GO:0008643","count":13},{"id":"GO:0006824","count":13},{"id":"GO:0015777","count":13}]},{"hash":"720184374660831095","title":"Endosomal trafficking and GTPase regulation","description":"This cluster is dominated by GO terms tied to endosome dynamics and recycling (endosomal organization, endocytic/receptor recycling, endosome size, transport to melanosomes), and regulation of GTPase activity/Rho signaling, suggesting a cohesive role in vesicle trafficking controlled by Rho-family GTPases. Although a few terms touch on neuronal signaling (synaptic plasticity) and cytokine production (IL-6), these appear as ancillary contexts rather than core cluster themes.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":1},{"id":"GO:0001881","count":1},{"id":"GO:1990126","count":1},{"id":"GO:0007032","count":1},{"id":"GO:0031914","count":1}]},{"hash":"1709023729343351279","title":"Vesicle transport and exocytosis","description":"The cluster is dominated by GO terms tied to vesicle trafficking and secretion, including ER-to-Golgi transport, COPII vesicle coating regulation, intracellular protein transport, synaptic vesicle exocytosis, and the acrosome reaction, with broader hints at neuronal development. This suggests a cohesive theme around secretory pathways and vesicle-mediated cargo delivery across different cell types, justifying a label focused on vesicle transport and exocytosis.","confidence":"High","size":16,"edges":68,"triangles":109,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0006888","count":5},{"id":"GO:0031384","count":4},{"id":"GO:0010796","count":4},{"id":"GO:2000300","count":4}]},{"hash":"1831694310943996671","title":"Mitochondrial Transport and Metabolic Regulation","description":"The terms cluster around transport into mitochondria (ADP, pyrimidine nucleotides, metal ions) and processes that regulate mitochondrial function (membrane potential) along with related metabolic/redox responses (superoxide, fatty acids, insulin/glucose signaling). This points to a cohesive module centered on mitochondrial transporters and energy/metabolic regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0006828","count":2},{"id":"GO:0031921","count":2},{"id":"GO:0051881","count":2}]},{"hash":"272383319604493121","title":"Cell Cycle and Development Regulation","description":"The top GO terms cluster around mitotic control (G1/S and G2/M transitions, mitotic cell cycle) and DNA damage checkpoint regulation, indicating a core theme of cell division control. Additional terms touch on differentiation and morphogenesis (liver development, flowering) and cytoskeletal remodeling, suggesting broader participation in growth and developmental processes. However, the lack of edges and the presence of disparate, cross-species terms mean there isn\u2019t a single tightly connected pathway; the label captures a general theme of cell cycle and development-related functions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":2},{"id":"GO:0030154","count":1},{"id":"GO:0000086","count":1},{"id":"GO:0043149","count":1},{"id":"GO:0048575","count":1}]},{"hash":"831433725506549878","title":"Oxidative Stress Response and Redox Homeostasis","description":"Most top terms relate to redox biology and stress responses (cellular redox homeostasis, oxidative stress, hydrogen peroxide signaling), with supporting terms for ER stress and protein deglutathionylation. This points to a cluster of proteins involved in managing oxidative damage and maintaining redox balance; other terms like viral process and antibiotic response are less central but may reflect broader stress signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0045454","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0016032","count":2}]},{"hash":"77187531489669649","title":"Developmental kinase signaling regulators","description":"The cluster shows enrichment for regulation of kinase activity (serine/threonine kinase activity, protein autophosphorylation), GTPase activity, and broad developmental processes (multicellular development, mitotic cell cycle, skin development). These terms point to proteins that modulate signaling pathways and phosphorylation to govern development and cell-cycle progression, rather than a single specific process. The lack of observed edges suggests dispersed roles, but the common theme is regulatory signaling via kinases and GTPases in development.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2258853996645758415","title":"Cell Cycle and Intracellular Transport","description":"Most frequent GO terms relate to cell division (mitotic/meiotic nuclear division, spindle checkpoint), nuclear pore localization, actin cytoskeleton dynamics, and intraciliary retrograde transport. These collectively point to a cluster enriched for mitosis/meiotic processes and components governing material movement within cells, with some neuronal development associations. The name reflects the core connection to division and transport, though a few terms indicate broader roles.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0031081","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0050773","count":2}]},{"hash":"1913684999499612684","title":"Developmental transcriptional regulation and epigenetic modifiers","description":"The cluster centers on DNA-templated transcription and related epigenetic processes (e.g., histone demethylation) with regulatory roles in development (vasculogenesis, myoblast differentiation), pointing to a group of transcriptional/epigenetic regulators active in development.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:2001214","count":1},{"id":"GO:0042264","count":1}]},{"hash":"1038370228556111878","title":"Growth Factor and Immune Signaling","description":"Proteins in this cluster are linked to growth factor receptor signaling (PDGF, erythropoietin, FGFR-related pathways) and immune signaling (T cell receptor signaling, IL-7 response, leukocyte chemotaxis), plus related apoptotic processes. This suggests a cohesive theme around growth-factor\u2013mediated and immune-cell signaling regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":1},{"id":"GO:0038162","count":1},{"id":"GO:0070926","count":1},{"id":"GO:0036120","count":1},{"id":"GO:1902178","count":1}]},{"hash":"2247105262126494570","title":"Actin-Driven Endocytosis and Exocytosis","description":"This cluster is dominated by GO terms tied to membrane trafficking and cytoskeletal remodeling, notably slow endocytic recycling, actin filament depolymerization, and actomyosin structure organization, along with exocytosis. These collectively point to proteins coordinating vesicle trafficking through actin dynamics. Some terms like transcription regulation, ribosome assembly, and signaling are present but far less representative, suggesting these are peripheral associations. Overall, the core theme is actin-mediated vesicle movement and membrane trafficking.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032458","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0031032","count":2},{"id":"GO:0010735","count":2},{"id":"GO:0019417","count":2}]},{"hash":"1480932470104374952","title":"Unknown","description":"Top GO terms show a mix of lipid and amino acid metabolism, pteridine metabolism, ribosome biogenesis, and a development term, with no single cohesive function across the proteins. This lack of a common theme makes it unclear to assign a specific, representative label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046843","count":1},{"id":"GO:0046338","count":1},{"id":"GO:0031161","count":1},{"id":"GO:0071267","count":1},{"id":"GO:0042558","count":1}]},{"hash":"1512324742425541981","title":"Aminoacyl-tRNA charging and translation","description":"The cluster is strongly characterized by multiple aminoacyl-tRNA synthetase activities (prolyl-, histidyl-, glutamyl-, tryptophanyl-, glycyl-tRNA) plus a translation term, pointing to a cohesive group involved in tRNA charging and protein synthesis. Peripheral terms like regulation of angiogenesis or interferon response appear secondary. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006433","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0006427","count":1},{"id":"GO:0045765","count":1},{"id":"GO:0006424","count":1}]},{"hash":"1819912698530163998","title":"Vesicle trafficking and endomembrane organization","description":"This cluster is enriched for GO terms tied to vacuole inheritance, Golgi-to-endosome transport, endomembrane system organization, lysosome localization, and autophagy, pointing to a shared role in vesicle trafficking and organelle transport. Additional terms related to GTPase activity regulation and membrane localization (plasma membrane, contractile vacuole discharge, synaptic transmission) reinforce a unifying theme of vesicle dynamics and secretory pathways.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":2},{"id":"GO:0006895","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0010256","count":2},{"id":"GO:0006914","count":1}]},{"hash":"1763247932416372806","title":"Unknown","description":"The top GO terms are very heterogeneous, including pain response, fat cell differentiation, protein ubiquitination, mechanical stimulus response, vasopressin secretion, vitamin D response, telomere regulation, and mRNA stability, with no single cohesive biological theme. Additionally, there are no edges among the proteins, suggesting little shared functional connectivity. Because there is no clear unifying function for the cluster, a concise and representative label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0030103","count":1}]},{"hash":"485961366930795552","title":"Nucleolar RNA Processing & Ribosome Biogenesis","description":"The cluster features chromatin remodeling, RNA silencing, spliceosome-regulated splicing, ribosomal large-subunit biogenesis, preribosome assembly, and DNA damage repair, pointing to a nucleus/nucleolus-focused module coordinating RNA processing with ribosome assembly and genome maintenance.","confidence":"Medium","size":15,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0016441","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0042273","count":1},{"id":"GO:1902626","count":1}]},{"hash":"2232189351740943656","title":"Regulation of mitophagy","description":"The cluster is strongly characterized by GO terms tied to autophagy of mitochondrion, including both negative and positive regulators of mitophagy (GO:0000422 and GO:1903599), suggesting a shared theme of mitochondrial autophagy control. While there are a few terms related to broader cellular processes (e.g., cell cycle regulation, proteasomal activity), the prominent mitophagy-related terms indicate that the proteins collectively participate in mitochondrial quality control through autophagy pathways. Overall, the dominant signal is regulation of mitophagy, with auxiliary links to mitochondrial biology and cellular homeostasis.","confidence":"High","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903204","count":2},{"id":"GO:0045620","count":2},{"id":"GO:2000134","count":2},{"id":"GO:1901799","count":2},{"id":"GO:0045736","count":2}]},{"hash":"1667003259288102576","title":"Unknown","description":"The top GO terms are highly diverse, spanning lipid metabolism, transcription termination, meiotic cell cycle, signaling, drug response, nucleotide biosynthesis, chromatin regulation, and ion response, with no clear shared function or pathway dominating the cluster. This lack of a unifying theme suggests the proteins do not reflect a single cohesive biological process, so a meaningful, specific label isn\u2019t supported.","confidence":"","size":15,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006685","count":1},{"id":"GO:0030847","count":1},{"id":"GO:0051321","count":1},{"id":"GO:0033173","count":1},{"id":"GO:0042220","count":1}]},{"hash":"1037705188060921541","title":"Transmembrane Transporters of Ions and Metabolites","description":"The top GO terms indicate transmembrane transport across membranes for a variety of substrates (xenobiotics, polyamines, carnitine, ammonium, GABA, leucine) and processes linked to cell volume regulation and osmoregulation. This pattern suggests the proteins in this cluster function as membrane transporters handling ions and small metabolites, across cells and epithelia.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":2},{"id":"GO:0006855","count":2},{"id":"GO:1902269","count":1},{"id":"GO:0035826","count":1},{"id":"GO:1902274","count":1}]},{"hash":"1311804385684527315","title":"Mitochondrial metabolite and metal transport","description":"The cluster shows enrichment for mitochondrial transport of ADP, manganese, iron, pyridoxal phosphate, and pyrimidine nucleotides, as well as regulation of mitochondrial membrane potential and responses to superoxide and fatty acids. This combination suggests a cohesive function in mitochondrial substrate import and redox/homeostatic control within mitochondria.","confidence":"High","size":15,"edges":37,"triangles":16,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":12},{"id":"GO:0061179","count":12},{"id":"GO:0006828","count":12},{"id":"GO:0031921","count":12},{"id":"GO:0051881","count":12}]},{"hash":"702987747256168114","title":"Vitamin biosynthesis and fatty acid metabolism","description":"The cluster is enriched for multiple biosynthetic GO terms (biotin, phylloquinone, menaquinone) alongside fatty acid beta-oxidation and L-valine catabolism, pointing to a metabolic module combining vitamin biosynthesis with lipid/energy metabolism. Some outlier terms (RNA modification, mitochondrial protein import) may reflect broader cellular processes or annotation noise but do not override the main metabolic theme.","confidence":"Medium","size":15,"edges":87,"triangles":266,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0009234","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0009451","count":2},{"id":"GO:0055114","count":2}]},{"hash":"803513163327377436","title":"Widespread Tissue Development and Differentiation","description":"This cluster's GO terms center on development and differentiation across diverse tissues (muscle, heart, mesenchyme, kidney/interstitial fibroblasts, pancreas, auditory cells, etc.), indicating a general developmental program rather than a single tissue-specific function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048743","count":1},{"id":"GO:0003266","count":1},{"id":"GO:2000818","count":1},{"id":"GO:0060485","count":1},{"id":"GO:0045663","count":1}]},{"hash":"328378092259731190","title":"Unknown","description":"The top terms point to neural development and cerebellar structure (cerebellar cortex formation, Bergmann glial differentiation, regulation of axon regeneration), but several other terms (DNA replication, insulin receptor signaling, T cell receptor signaling, NF-kappaB activity) suggest unrelated processes. The cluster therefore lacks a coherent, single biological theme, so it\u2019s best labeled Unknown with None.","confidence":"","size":15,"edges":22,"triangles":8,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0050852","count":10},{"id":"GO:0060020","count":9},{"id":"GO:0048679","count":9},{"id":"GO:2001275","count":9}]},{"hash":"1579261216471582926","title":"Mitochondrial Transport and Metabolism","description":"The top GO terms cluster around transport of various metabolites into and across mitochondria (ADP, manganese ions, pyridoxal phosphate, iron, pyrimidine nucleotides) and processes that maintain mitochondrial function (membrane potential) and respond to oxidative stress and fatty acids. This suggests a cohesive module centered on mitochondrial transport and energy/metabolic regulation, with indirect links to insulin secretion through energy signaling. An obsolete term is present but does not affect the main theme.","confidence":"High","size":15,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":6},{"id":"GO:0061179","count":6},{"id":"GO:0006828","count":6},{"id":"GO:0031921","count":6},{"id":"GO:0051881","count":6}]},{"hash":"797554504059221671","title":"Drosophila Embryogenesis and RNA Processing","description":"The cluster centers on embryonic development programs (syncytial blastoderm, endoderm, eye-antennal disc development, heart morphogenesis) and chromatin/regulatory processes, with RNA processing actors (spliceosome assembly and splicing) also represented, pointing to a developmental regulatory module in Drosophila involving chromatin remodeling and RNA processing.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048096","count":1},{"id":"GO:0007492","count":1},{"id":"GO:0046020","count":1},{"id":"GO:0001892","count":1},{"id":"GO:0003007","count":1}]},{"hash":"710211092578936388","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043630","count":1},{"id":"GO:0010586","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0036450","count":1},{"id":"GO:0019076","count":1}]},{"hash":"783111647052744823","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":100,"triangles":396,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":11},{"id":"GO:0000398","count":10},{"id":"GO:0016441","count":9},{"id":"GO:0042273","count":9}]},{"hash":"937284075270807678","title":"RNA processing and ribosome biogenesis","description":"The top terms cluster around RNA maturation (including spliceosome-mediated and alternative splicing, and polyadenylation) and ribosome biogenesis, with additional post-transcriptional regulation signals (miRNA-mediated silencing) and a cell-cycle checkpoint hint. This suggests a core theme of RNA processing and ribosome assembly, with related gene expression control during division.","confidence":"Medium","size":15,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007094","count":2},{"id":"GO:0048026","count":1},{"id":"GO:0000380","count":1}]},{"hash":"1427199638340383137","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":13,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006458","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006491","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0010977","count":1}]},{"hash":"1472071572644637344","title":"Embryonic and Brain Development with RNA Processing","description":"The top GO terms point to embryonic and cerebral cortex development, suggesting a developmental program focused on brain formation. Additionally, there are signals of RNA processing and chromatin regulation (alternative splicing and chromatin binding), indicating a theme of developmental gene regulation at the level of transcriptional and post-transcriptional control. Some metabolic terms appear less central to this core theme, but do not override the developmental/RNA-processing signal.","confidence":"Medium","size":15,"edges":24,"triangles":21,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0035563","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0021987","count":5}]},{"hash":"1999781417023722051","title":"Neural development and synaptic signaling","description":"The terms cluster around nervous system development, axonogenesis, Schwann cell development, and synaptic activity (long-term potentiation, excitatory postsynaptic potential), suggesting a neural development and signaling theme; some terms like visual perception also reflect neural processing, while a few appear as outliers (sperm capacitation, pseudohyphal growth). Overall, neural development and synaptic signaling best explain the cluster.","confidence":"Medium","size":15,"edges":39,"triangles":43,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0060291","count":6},{"id":"GO:0060079","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007409","count":5}]},{"hash":"1115328780354948383","title":"Transmembrane Transporters and Vesicle Loading","description":"The top GO terms are dominated by various transmembrane transport activities, including nitrite, nitrate, phosphate, arabinose, sialic acid, and xenobiotic transport, as well as neurotransmitter loading into synaptic vesicles. This points to a broad set of membrane transport proteins handling diverse substrates, with vesicle loading highlighting a specific transport-related process. Therefore, the cluster can be labeled as Transmembrane Transporters and Vesicle Loading, reflecting a common function of moving substances across membranes, albeit across different substrates. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0015707","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0098700","count":3}]},{"hash":"1845983536311020024","title":"Unknown","description":"The GO terms span lipid metabolism, development, photoinhibition, nitrate assimilation, and organelle inheritance with no clear shared function, suggesting the cluster is heterogeneous rather than a cohesive functional group.","confidence":"","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010205","count":1},{"id":"GO:0050872","count":1},{"id":"GO:1903966","count":1},{"id":"GO:0070542","count":1},{"id":"GO:0006809","count":1}]},{"hash":"973188082523545616","title":"Lipid Droplet Biogenesis and Triglyceride Metabolism","description":"The cluster is dominated by terms related to triglyceride storage, mobilization, and regulation of triglyceride biosynthesis, as well as protein localization to lipid droplets, indicating a core function in lipid droplet formation and triglyceride turnover. Some mitochondrial and Golgi terms appear as secondary context rather than defining features.","confidence":"High","size":15,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":2},{"id":"GO:0090149","count":2},{"id":"GO:1903358","count":2},{"id":"GO:0060192","count":2},{"id":"GO:0030730","count":2}]},{"hash":"1827276813319188167","title":"Neurotransmitter uptake and glycinergic signaling","description":"This cluster centers on uptake and transport of neurotransmitters and amino acids (dopamine and serotonin uptake; glycine-related transport/secretion; taurine and proline transport) and regulation of glycinergic synaptic transmission, suggesting a common function in synaptic neurotransmission and amino acid signaling. The thalamus development term is a peripheral connection, but the core theme is neurotransmitter transport and glycinergic regulation. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051583","count":1},{"id":"GO:0014064","count":1},{"id":"GO:0015824","count":1},{"id":"GO:0060092","count":1},{"id":"GO:1903346","count":1}]},{"hash":"2198549225976826817","title":"Neurodevelopmental Signaling","description":"These proteins show a theme around neural development, with neuron development and brain development appearing prominently, and supported by intracellular signal transduction and cAMP biosynthetic processes that typically drive signaling pathways regulating gene expression during development. Some terms (sporulation, poly-hydroxybutyrate biosynthetic process) appear unrelated and may reflect annotation noise or cross-species multifunctionality, but the core signal points to neural development and signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0035556","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0030435","count":2}]},{"hash":"2249363314913147926","title":"Developmental transcriptional regulators","description":"The most represented GO terms center on DNA-templated transcription and its regulation, along with development-related terms such as cerebral cortex development and multicellular organism development, suggesting proteins that control gene expression during development. Additional terms for corticosterone and ethanol responses imply hormonal/stress signaling that can influence developmental programs. A single outlier term for sperm capacitation is present but does not dominate the cluster\u2019s theme. Overall, the cluster appears to be transcriptional regulators involved in development, with some stress-response links.","confidence":"Medium","size":15,"edges":17,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0048240","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006355","count":3},{"id":"GO:0045793","count":3}]},{"hash":"1928757554851545606","title":"Golgi-ER Trafficking and Golgi Organization","description":"The top GO terms cluster around retrograde transport from the Golgi to the ER and Golgi organization, plus cytoplasm-to-vacuole targeting via the Cvt pathway \u2014 all indicative of endomembrane trafficking. Additional terms like insulin processing and bradykinin catabolic process support a secretory pathway context. Some unrelated terms (cell adhesion, meristem structure) exist but do not override the dominant trafficking/theme signal. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0007030","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0010951","count":1},{"id":"GO:0030070","count":1}]},{"hash":"302428410350806594","title":"Proteoglycan biosynthesis and cell adhesion","description":"The top GO terms cluster around proteoglycan biosynthesis and glycosylation (including UDP-D-xylose metabolism and heparin proteoglycan biosynthetic process) and include cell adhesion-related processes, suggesting a cohesive theme of extracellular matrix components and their assembly, which also ties to developmental contexts like placenta and kidney morphogenesis. Some terms are more peripheral (insulin response, intestinal absorption) but do not override the core ECM/glycosylation signal.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001890","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0060993","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0032868","count":2}]},{"hash":"947131971777928342","title":"Bacterial fatty acid biosynthesis and lipid metabolism","description":"This cluster is dominated by GO terms for fatty acid biosynthesis and long-chain/fatty acid metabolism, plus lipid import and lipoteichoic acid biosynthesis, pointing to a shared lipid metabolic function in bacteria. Additional terms related to acetate/pyruvate carbon flux and aromatic compound catabolism are present but less central, so the main theme is fatty acid\u2013related lipid metabolism.","confidence":"Medium","size":15,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":5},{"id":"GO:0000038","count":5},{"id":"GO:0010124","count":5},{"id":"GO:0070395","count":5},{"id":"GO:0090410","count":5}]},{"hash":"139775196517893811","title":"Central Carbon Metabolism and DNA Replication","description":"The top GO terms cluster around core metabolism (carbohydrate phosphorylation; glycolysis; gluconeogenesis; L-arginine biosynthesis) and DNA replication, suggesting proteins tied to energy metabolism and genome synthesis. While some terms reference protein targeting and stress responses, these are less represented, so this label captures the main theme without overreaching.","confidence":"Medium","size":15,"edges":17,"triangles":5,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006526","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0006096","count":2}]},{"hash":"820401466339802893","title":"Secretory Pathway Components","description":"The top GO terms cluster around vesicle-mediated transport between the ER and Golgi and other secretory-related processes (ER-Golgi transport, retrograde transport, pancreatic secretion, proteolysis, protein oligomerization). There are additional terms touching on immune defense and adipocyte differentiation, which can be linked to secreted factors and secretory pathway activity. Some outlier terms (DNA replication, cell-cycle regulation) may reflect annotation noise or multi-function proteins rather than a core theme. Overall, the cluster appears dominated by secretory pathway and secreted protein regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1903461","count":2},{"id":"GO:0070317","count":2}]},{"hash":"1658714278660391921","title":"Chemical stress response and neurotransmitter regulation","description":"The top GO terms show responses to various chemical stimuli (lipopolysaccharide, corticosterone, ethanol, xenobiotic) and regulation of monoamine neurotransmitters (dopamine, serotonin), plus a quinolinate biosynthesis link. This suggests a cluster of proteins involved in chemical stress responses that modulate neural signaling pathways, hence a label focusing on chemical stress response and neurotransmitter regulation.","confidence":"High","size":15,"edges":25,"triangles":16,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0051412","count":4},{"id":"GO:0045471","count":4},{"id":"GO:0019805","count":4},{"id":"GO:0010269","count":4}]},{"hash":"1004823748823529487","title":"Neural and Retina Development","description":"The top GO terms include retina development and neuron projection development, with additional embryonic development signals like gastrulation. While some terms describe general cellular processes (ribosomal biogenesis, histone methylation, protein homooligomerization), the strongest signals reference neural/retinal formation and early development, suggesting proteins specialized for neural and eye development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0010255","count":3}]},{"hash":"719276020991969294","title":"Unknown","description":"The top GO terms span neural development (axonogenesis, visual learning) and broad cellular processes (mitotic spindle organization, meiosis II cytokinesis, re-entry into mitotic cell cycle, caveolin-mediated endocytosis, phospholipid transport, glycogen cell differentiation in embryonic placenta development) with little cohesive overlap, indicating no single interpretable function for this protein cluster.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:0007052","count":2},{"id":"GO:0015914","count":1},{"id":"GO:0007111","count":1},{"id":"GO:0019858","count":1}]},{"hash":"1727126257586831145","title":"Lipid metabolism and detox signaling cluster","description":"Top terms suggest lipid/ small-molecule catabolism (glucuronoside, triglyceride, alkaloid, phospholipid) and endocannabinoid signaling regulation, plus related detox and signaling responses (response to toxic substance, TGF-beta stimulus). While there are no edges, the shared GO terms point to a cohesive theme around lipid metabolism with detox/regulatory signaling roles rather than a single enzymatic function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0019391","count":1},{"id":"GO:0009820","count":1},{"id":"GO:0019433","count":1}]},{"hash":"801575885321291890","title":"RNA Processing and Translational Regulation","description":"Top GO terms are dominated by translation and translational termination, including cytoplasmic translation and translational fidelity, with additional signals for mRNA decay (deadenylation-dependent) and spliceosomal assembly. This points to a cluster of proteins involved in RNA metabolism that modulates gene expression at the level of RNA processing and translation, rather than a single canonical pathway. Hence the label captures both RNA processing and translational control.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000122","count":2},{"id":"GO:0035914","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0002184","count":1}]},{"hash":"74759490197981141","title":"Steroid and Vitamin D Metabolism","description":"The top GO terms cluster around steroid and vitamin D pathways (response to vitamin D, calcitriol biosynthesis, androgen and brassinosteroid metabolism), along with triglyceride metabolism, suggesting a shared theme of lipid/steroid metabolism. A few terms on endothelial adhesion and hepatocyte differentiation are less central but may reflect broader metabolic or developmental roles; overall the primary signal points to steroid and vitamin D\u2013related lipid metabolism.","confidence":"Medium","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0046232","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0010268","count":3},{"id":"GO:0071603","count":3}]},{"hash":"1808441948251582574","title":"Unknown","description":"The terms span RNA processing, development, secretory pathways, digestion, and osmotic/stress responses, with no single cohesive function linking the majority of terms, so no clear cluster-wide theme.","confidence":"","size":14,"edges":18,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":1},{"id":"GO:0030437","count":1},{"id":"GO:0033326","count":1},{"id":"GO:0021670","count":1},{"id":"GO:0033363","count":1}]},{"hash":"1684731078122673131","title":"Regulation of cellular signaling and trafficking","description":"The top GO terms are dominated by regulatory roles across diverse cellular processes: both positive and negative regulation of signaling pathways (Rho, Ras), modulation of neuronal signaling, and processes tied to membrane trafficking (endocytosis, ER membrane organization) and cargo transport (ribosomal subunit export), plus centriole elongation. This pattern suggests proteins that act as regulators modulating multiple pathways rather than core enzymatic or structural components. The label aims to capture the overarching theme of regulatory control across signaling and trafficking processes. Some outliers (e.g., mismatch repair, TNF regulation) reduce specificity, so confidence is Medium.","confidence":"Medium","size":14,"edges":33,"triangles":17,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032425","count":2},{"id":"GO:2000203","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1905433","count":2},{"id":"GO:0061511","count":2}]},{"hash":"2276581066200059035","title":"Xenobiotic and lipid catabolism","description":"This cluster is enriched for catabolic processes across diverse substrates: uracil and alkaloid metabolism, triglyceride and phospholipid turnover, and aromatic compound degradation via the beta-ketoadipate pathway, plus responses to toxic substances and regulation of lipid signaling. Together these terms point to a functional theme of detoxification and breakdown of xenobiotics and lipids. ","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006212","count":7},{"id":"GO:0009820","count":6},{"id":"GO:0019433","count":6},{"id":"GO:0046839","count":6},{"id":"GO:0055114","count":6}]},{"hash":"368836797462972130","title":"RNA processing and translation control","description":"Top terms combine ribosome biogenesis and translation initiation with extensive RNA processing and splicing regulation, suggesting a cohesive role in RNA metabolism and gene expression control at the transcript processing and translation initiation levels.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1686599604931860155","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"Most top terms center on ubiquitin tagging and proteasomal breakdown (ubiquitin-dependent protein catabolic processes, SCF-dependent ubiquitinylation, K48-linked ubiquitination, protein ubiquitination, autoubiquitination). A few terms touch histone turnover and signaling, but the dominant theme is ubiquitin tagging leading to degradation, i.e., the ubiquitin-proteasome system.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0051865","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0030433","count":4}]},{"hash":"939510299389267666","title":"RNA processing and ribosome biogenesis","description":"This cluster is dominated by GO terms related to RNA processing and regulation (splicing via the spliceosome, post-transcriptional and ncRNA-mediated gene silencing, rRNA processing) and by ribosome biogenesis (large subunit biogenesis and preribosome assembly), pointing to a nucleolar RNA-processing/ribosome-assembly module. Additional terms like DNA replication and embryonic morphogenesis are present but less central to the core theme.","confidence":"High","size":14,"edges":84,"triangles":289,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11},{"id":"GO:0000464","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0016441","count":6}]},{"hash":"2031770864810673937","title":"Metabolic Catabolism and Stress Response","description":"The top GO terms cluster around catabolic metabolism (polysaccharide, carnitine, oxalate, purine) and stress/adaptation themes (anoxia, phosphate starvation), with additional lipid and carbon metabolism signals, suggesting a unit of proteins engaged in substrate breakdown and response to nutrient/oxygen stress.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000272","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0043427","count":1},{"id":"GO:0033611","count":1},{"id":"GO:2001311","count":1}]},{"hash":"2215450954677554082","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":11,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042273","count":6},{"id":"GO:0000480","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0000472","count":6},{"id":"GO:0000463","count":6}]},{"hash":"502666124300221190","title":"Diverse membrane transporters","description":"Most top GO terms are transmembrane transport activities for a range of substrates (cobalt, carbohydrates, teichoic acids, phospholipids, ceramide, taurine, methionine). Although SOS response appears, the predominant pattern is membrane transport, so the cluster is best described as membrane transporters with diverse substrates.","confidence":"High","size":14,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":13},{"id":"GO:0006824","count":12},{"id":"GO:0008643","count":12},{"id":"GO:0015777","count":12},{"id":"GO:0045332","count":12}]},{"hash":"1876631593583739600","title":"Unknown","description":"The GO terms are scattered across transport, telomere maintenance, centrosome/spindle dynamics, and differentiation/migration, with no single dominant function tying the proteins together. This diversity makes a cohesive, specific label unlikely.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":2},{"id":"GO:0006855","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0007098","count":2}]},{"hash":"1621999727516079940","title":"SRP-mediated membrane targeting and unfolded protein response","description":"This cluster centers on GO terms related to SRP-dependent cotranslational targeting to membranes and related protein targeting processes, along with cellular responses to unfolded proteins and chaperone/refolding activities. Together these point to a cohesive theme of membrane targeting of nascent proteins and management of protein folding stress (ER-associated quality control). A few terms (DNA replication, karyogamy) appear less connected and may reflect annotation noise. ","confidence":"Medium","size":14,"edges":15,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2209336481573966040","title":"Membrane Transport","description":"The GO terms are dominated by various membrane-associated transport processes\u2014ion transport (cobalt, cadmium), lipid and ceramide translocation, teichoic acid and carbohydrate transport, peptide antigen transport, and cytosol-to-ER trafficking\u2014suggesting these proteins collectively function in moving substrates across membranes or between compartments. While antibiotic response appears, the core signal is transport across membranes, justifying a membrane transport label. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0046968","count":1},{"id":"GO:0006824","count":1},{"id":"GO:0045332","count":1},{"id":"GO:0046967","count":1}]},{"hash":"903008733199595841","title":"Synaptic Transmission and Plasticity","description":"Label reflects multiple GO terms centered on neural communication and plasticity: synaptic vesicle priming, glutamatergic synaptic transmission, long-term potentiation, and regulation of synaptic plasticity. These terms point to functions at neuronal synapses and activity-dependent plasticity, suggesting the proteins form a cluster involved in synaptic signaling. A couple of terms (myoblast fusion, abscisic acid-activated signaling) are less consistent with the others, which could reflect multifunctional annotations or cross-kingdom associations, but do not override the dominant synaptic theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007520","count":2},{"id":"GO:0016082","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0009738","count":2},{"id":"GO:0010954","count":2}]},{"hash":"443914009760732805","title":"Integrin signaling and cell adhesion","description":"This cluster is dominated by terms related to integrin-mediated signaling, substrate adhesion-dependent cell spreading, and cellular responses to growth factors (PDGF) and survival (anoikis regulation), indicating a cohesive role in cell\u2013substrate interactions, adhesion signaling, and related migration/survival processes. Some unrelated terms like DNA replication or metabolism may reflect shared housekeeping proteins, but the core theme centers on adhesion and signaling. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0036120","count":3},{"id":"GO:0007229","count":3},{"id":"GO:2000811","count":3},{"id":"GO:0034446","count":3},{"id":"GO:0051092","count":3}]},{"hash":"479671114789975343","title":"Membrane Transporters and Lipid/Ion Trafficking","description":"Top terms indicate a focus on transport across membranes, including phospholipid and ceramide translocation, cytosol-to-ER transport, antigen transport, cadmium import into vacuoles, and chloride transport/regulation. A few salvage metabolism terms are present but do not define the cluster's core function. Overall, the cluster is best described as membrane transport-related. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044211","count":1},{"id":"GO:0006223","count":1},{"id":"GO:0044206","count":1},{"id":"GO:0046968","count":1},{"id":"GO:0045332","count":1}]},{"hash":"842532969601729517","title":"Oxidative Stress and Inflammatory Signaling","description":"The cluster shows strong signals for redox homeostasis and oxidant detoxification (cell redox homeostasis, cellular oxidant detoxification, response to ozone), suggesting a shared role in handling oxidative stress. It also includes inflammatory mediator terms (prostaglandin biosynthetic process, chemokine production), indicating coordinated inflammatory signaling. Some chromatin-related terms are obsolete and may reflect annotation noise rather than a cohesive chromatin- regulation theme; overall, the core connection is redox balance paired with inflammation-related signaling.","confidence":"High","size":14,"edges":28,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0061188","count":3},{"id":"GO:0001516","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0010193","count":2}]},{"hash":"1840949276107955947","title":"Developmental Gene Regulation and Growth Signaling","description":"The top GO terms center on developmental processes (forebrain, skeletal system, multicellular organism development) and DNA-templated transcription, with supporting signals related to growth and cell-cycle regulation (TORC1 signaling, GTPase activity, mitotic cell cycle) and stress-related apoptosis. This suggests a broad role in developmental gene regulation coupled with growth signaling, rather than a single specific pathway. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006349","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1128894495147172703","title":"Golgi-ER Vesicle Transport","description":"Most of the top GO terms point to intracellular vesicle trafficking across the secretory pathway, especially ER-to-Golgi and Golgi-to-vacuole transport, as well as vesicle fusion with the Golgi and endosome-to-Golgi retrograde transport. This suggests a cohesive theme of Golgi-associated vesicle trafficking, justifying a label centered on the Golgi-ER transport axis. Some terms are unrelated functions and may reflect broader or noisy annotations, but they do not override the Golgi-traffic signal.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044339","count":1},{"id":"GO:0000022","count":1},{"id":"GO:0061101","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0042147","count":1}]},{"hash":"303529120965322568","title":"Unknown","description":"The top terms are diverse and only lightly connected, spanning lipoprotein oxidation, seed maturation, cytokine regulation, vitamin K response, adhesion, and nuclear import, with no shared pathway or strong functional theme and no edges tying the proteins together. This suggests no coherent function for the cluster overall.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060588","count":1},{"id":"GO:0010431","count":1},{"id":"GO:1904209","count":1},{"id":"GO:0071638","count":1},{"id":"GO:1900016","count":1}]},{"hash":"663240176748050946","title":"Vesicle trafficking and mRNA localization","description":"This cluster centers on vesicle docking, tethering, exocytosis, and transport between the Golgi, endosomes, and plasma membrane, indicating a cohesive theme of intracellular membrane trafficking. Additional terms touch mRNA export and localization within oocytes/pollen tubes, aligning with cytoskeletal- and transport-dependent localization processes. Taken together, the proteins likely participate in vesicle transport and RNA localization mechanisms across different cellular contexts.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048278","count":1},{"id":"GO:0090522","count":1},{"id":"GO:0034498","count":1},{"id":"GO:0006887","count":1},{"id":"GO:0006893","count":1}]},{"hash":"1931378401932163696","title":"Dendritic spine morphogenesis and synaptic localization","description":"This cluster\u2019s GO terms cluster around neuronal synapse formation: dendritic spine morphogenesis, protein localization to synapse, receptor clustering, and Rho signaling, indicating a coordinated role in synaptic development and spine remodeling. Additional terms on ciliary motility and DNA replication may reflect multifunctional proteins or overlapping pathways, but the dominant signal is neuronal synapse organization.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0035418","count":2},{"id":"GO:0007266","count":2}]},{"hash":"894844137376614684","title":"Secretory pathway vesicle trafficking","description":"Top terms point to vesicle transport within the secretory pathway, including ER\u2013Golgi and Golgi\u2013plasma membrane trafficking and general protein transport, suggesting a cohesive function in intracellular trafficking through the Golgi network. While a couple of unrelated or obsolete terms appear, the dominant signal supports a secretory-route transport theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000282","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006893","count":1},{"id":"GO:0034221","count":1}]},{"hash":"1767543221340680811","title":"Unknown","description":"The proteins show a highly diverse set of GO terms with little to no overlap in a common biological function, and the network has no edges or triangles, offering no cohesive theme to label. Terms range from nutrient response and nitric oxide signaling to inflammatory cytokine regulation, demethylation, iron-sulfur cluster assembly, and chondrocyte differentiation, making a single representative function unlikely.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":1},{"id":"GO:0031284","count":1},{"id":"GO:0071372","count":1},{"id":"GO:0070988","count":1},{"id":"GO:0007263","count":1}]},{"hash":"2073873553403370137","title":"Golgi\u2013endosome vesicle trafficking","description":"The dominant GO terms describe retrograde Golgi\u2013ER transport, endosome\u2013Golgi and endocytosis pathways, multivesicular body sorting, and related trafficking steps, with melanosome transport feature, indicating a cohesive cluster of intracellular vesicle trafficking processes.","confidence":"High","size":13,"edges":35,"triangles":32,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0035646","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0060999","count":4}]},{"hash":"2108426116015221560","title":"Chromatin and Cell Cycle Regulation","description":"The top GO terms cluster around chromatin dynamics (negative regulation of chromatin binding), regulation of kinetochore assembly, and regulation of DNA endoreduplication, plus related post-translational modifications (deneddylation/desumoylation) that influence chromatin and cell cycle processes. While a few terms pertain to metal ion transport or development, the dominant theme ties to chromatin regulation and cell cycle control, supporting this label.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045016","count":1},{"id":"GO:0006824","count":1},{"id":"GO:1903830","count":1},{"id":"GO:0010724","count":1},{"id":"GO:0000338","count":1}]},{"hash":"774891431461936837","title":"Vertebrate embryogenesis and Wnt signaling","description":"The dominant GO terms point to vertebrate embryonic development (neural tube closure, forebrain and skeletal system development, multicellular organism development) with regulation of the Wnt pathway, suggesting a developmental module influenced by Wnt signaling. Some terms reflect stress or remodeling processes that can accompany development, but the core theme is embryogenesis and developmental signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1175369327686073455","title":"Chaperone-assisted folding and microtubule assembly","description":"Enrichment for protein folding, chaperone-mediated complex assembly, and cytoplasmic protein quality control, along with tubulin complex assembly and cortical microtubule organization, points to a core theme of chaperone-driven folding and cytoskeletal assembly. Transcription-related assembly terms appear only modestly, suggesting they are secondary to the main folding/assembly signal.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0007021","count":2},{"id":"GO:0031137","count":1},{"id":"GO:1990115","count":1}]},{"hash":"703450108823165525","title":"DNA-Templated Transcription Regulation","description":"This cluster is dominated by GO terms tied to transcription and its regulation (DNA-templated transcription, regulation of DNA-templated transcription, transcription initiation), suggesting proteins functioning in nuclear transcription control. A few other terms (ER protein folding, FMN biosynthesis, glyoxylate cycle regulation, and obsolete pathogenesis) appear, which may reflect annotation noise or multi-function proteins, but the core signal points to transcriptional regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0050435","count":1},{"id":"GO:0009405","count":1},{"id":"GO:0000160","count":1},{"id":"GO:2000874","count":1}]},{"hash":"1013039880319511032","title":"ER-Golgi Trafficking","description":"Top terms cluster around vesicle-mediated transport within the secretory pathway (ER-Golgi transport, ER lumen retention, and trafficking to the plasma membrane), suggesting the proteins are involved in ER-Golgi trafficking and protein localization. The other terms (glycogen metabolism, mucilage, cell wall) are peripheral annotations and do not define a unified function for the cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":1},{"id":"GO:0071340","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0090004","count":1},{"id":"GO:0006888","count":1}]},{"hash":"1851840018162123643","title":"Unknown","description":"The top GO terms are highly diverse, covering mitotic cell cycle, lens development, amino acid transport and metabolism, glycosylation, ribosome biogenesis, and even grooming behavior. There is no single coherent biological theme tying these terms together, suggesting either functionally broad proteins or heterogeneous annotations. Therefore no clear cluster function can be inferred.","confidence":"","size":13,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0002088","count":1},{"id":"GO:0080144","count":1},{"id":"GO:0034488","count":1},{"id":"GO:0060905","count":1}]},{"hash":"1503363619199888222","title":"Endocannabinoid-mediated neuronal signaling","description":"The top GO terms emphasize endocannabinoid signaling and neuronal communication, including regulation of endocannabinoid signaling, retrograde trans-synaptic signaling by endocannabinoid, and G protein-coupled glutamate receptor signaling, with neuroblast proliferation pointing to neuronal development. Lipid metabolism terms (triglyceride and phosphatidylserine catabolic processes) may relate to lipid substrates or turnover of endocannabinoids, but the core theme centers on neuronal signaling modulated by endocannabinoids. Overall, this cluster seems best described as endocannabinoid-mediated neuronal signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":2},{"id":"GO:0006624","count":1},{"id":"GO:0080151","count":1},{"id":"GO:0071327","count":1},{"id":"GO:0006660","count":1}]},{"hash":"984609681678592232","title":"Ubiquitin/SUMO-mediated Protein Quality Control (ERAD)","description":"This cluster is dominated by GO terms for ubiquitination, deubiquitination, sumoylation, and ubiquitin-dependent ERAD, pointing to a core function in ubiquitin/SUMO-mediated protein quality control and turnover. Additional terms related to cellular stress responses and trafficking (toxic substance response, GPCR internalization, neurotransmitter secretion) fit within the broader proteostasis and membrane trafficking network regulated by ubiquitin and SUMO pathways. Overall, the label reflects the central theme of ubiquitin/SUMO-driven protein quality control and ERAD involvement.","confidence":"High","size":13,"edges":76,"triangles":264,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0016925","count":5},{"id":"GO:0051865","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0097237","count":4}]},{"hash":"965023223668219855","title":"Nuclear transport and genome regulation","description":"The top GO terms point to nuclear-centric processes: nuclear pore complex assembly; NLS-bearing protein import into the nucleus; mRNA transport; regulation of DNA replication; and transcription regulation by RNA polymerase III. Together these suggest a cohesive theme around nuclear trafficking and genome regulation. While a few terms touch on apoptosis or morphogenesis, the dominant signal is nuclear transport and genome maintenance/functions. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000188","count":1},{"id":"GO:1903538","count":1},{"id":"GO:0051292","count":1},{"id":"GO:2001241","count":1},{"id":"GO:0006607","count":1}]},{"hash":"956855466980974626","title":"DNA replication and chromatin regulation","description":"The cluster is dominated by GO terms linked to DNA replication (including premeiotic replication) and chromatin silencing/heterochromatin formation, suggesting a unifying theme around DNA synthesis and chromatin control. While ribosomal assembly, cilium movement, and vesicle transport terms appear, they are less strongly represented, so the core signal points to nuclear DNA replication and chromatin regulation as the cluster\u2019s primary function.","confidence":"Medium","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:1990048","count":4},{"id":"GO:0000027","count":4},{"id":"GO:0031412","count":4},{"id":"GO:0003341","count":4}]},{"hash":"577066536412327850","title":"Diverse substrate membrane transporters","description":"The Top Terms are all transmembrane transport processes for many different substrates (nitrite, sodium, nitrate, arabinose, sialic acid, xenobiotics, phosphate, 4-hydroxyphenylacetate), plus general transport terms, which strongly suggests a cluster of membrane transporter proteins with varied substrates rather than a single specific pathway. The network metrics show no edges and low degree, indicating limited interaction information, while six proteins were re-added by RECIPE, supporting membership in a transport-related group.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0098700","count":1}]},{"hash":"1026316312465812262","title":"Lipid, Pigment, and Steroid Biosynthesis","description":"Proteins in this cluster are enriched for biosynthetic and metabolic processes across lipids (sphingolipids, mycolic acids), steroids (androgen and glucocorticoid pathways, retinoic acid), and pigments (melanin), plus retinoid metabolism. The common thread is synthesis/metabolism of lipid-like, pigment, and steroid molecules, suggesting a cohesive biosynthetic/metabolic module rather than a single enzyme class.","confidence":"Medium","size":13,"edges":72,"triangles":225,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030148","count":12},{"id":"GO:0042572","count":12},{"id":"GO:0006710","count":12},{"id":"GO:0055114","count":12},{"id":"GO:0042438","count":12}]},{"hash":"250408619717360848","title":"Developmental signaling and cytoskeleton remodeling","description":"This cluster centers on signaling pathways (Wnt, ERK, small GTPases) together with cytoskeletal dynamics (actin branching) and cell adhesion (adherens junctions), plus neuronal morphogenesis (dendrite development). While a trafficking term (Golgi localization) is present, the dominant theme is how signaling interfaces with cytoskeletal remodeling and adhesion during development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0016358","count":2},{"id":"GO:0090135","count":2},{"id":"GO:0034332","count":2}]},{"hash":"775721905159548149","title":"Lipid and Xenobiotic Metabolism","description":"This cluster is enriched for catabolic and metabolic processes involving lipids and small molecules, including triglyceride, glucuronoside, alkaloid, and chlorinated hydrocarbon catabolism, as well as phospholipid dephosphorylation and mycolate lipid assembly, suggesting a lipid- and xenobiotic-processing role. The presence of a toxic substance response supports detox-related functions, while iron transport can be linked to metal cofactor requirements in metabolic enzymes. Overall, the proteins appear to participate in lipid and xenobiotic metabolism and related detox and cell-wall lipid processes.","confidence":"Medium","size":13,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019391","count":1},{"id":"GO:0009820","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0006826","count":1},{"id":"GO:0046839","count":1}]},{"hash":"597593115080784556","title":"Regulatory Signaling and Development","description":"The GO terms point to regulation of multiple signaling pathways (NF-kappaB, TGF-beta receptor signaling, MAPK cascade), as well as processes linked to development, focal adhesion, and phosphorylation control. This suggests the proteins act as regulators of signaling and developmental processes rather than a single enzymatic function, justifying a broad label that captures the shared theme. The lack of network edges indicates the cluster may be heterogeneous or not tightly connected, hence a moderate level of confidence.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":3},{"id":"GO:0009636","count":2},{"id":"GO:0051893","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0007275","count":2}]},{"hash":"919913558761264310","title":"Cellular stress and stimulus response","description":"This cluster is enriched for GO terms spanning responses to mechanical and chemical stimuli (muscle activity/stretch, glucose, ethanol), immune-like response to dsRNA, ER stress\u2013triggered apoptotic signaling, and regulation of calcium signaling, suggesting a network of proteins involved in broad cellular stress and stimulus-response pathways rather than a single, specific function.","confidence":"Medium","size":13,"edges":43,"triangles":53,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014850","count":5},{"id":"GO:0050849","count":5},{"id":"GO:0035994","count":5},{"id":"GO:0071333","count":5},{"id":"GO:0019233","count":5}]},{"hash":"286558600808348825","title":"Neural development and growth signaling","description":"This cluster combines terms linked to nervous system development (forebrain development, multicellular organism development) with neuronal activity (sensory perception of pain, potassium ion transport) and key growth signaling pathways (PI3K/AKT, PDGF receptor signaling, receptor clustering, cell-matrix adhesion, regulation of cell size). The mix suggests a cohesive theme around neural development intertwined with growth and connectivity signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006813","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0006006","count":5},{"id":"GO:0007160","count":5}]},{"hash":"245524905910346374","title":"Ubiquitin-Dependent Proteostasis and Cell Cycle Regulation","description":"This cluster is dominated by ubiquitin-related processes: ERAD via ubiquitin, autoubiquitination, and ubiquitin-dependent protein catabolism, with sumoylation contributing to regulation. Also included are cell cycle and DNA damage checkpoint terms (G1/S regulation, mitotic G1 checkpoint), suggesting a proteostasis module that interfaces with cell cycle control and stress responses. A cadmium response signal aligns with cellular stress impacting proteostasis.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0000083","count":4}]},{"hash":"990036694640896622","title":"Cerebellar cortex development and Bergmann glial differentiation","description":"Most terms cluster around cerebellar development, especially cerebellar cortex formation and Bergmann glial cell differentiation, supported by transcriptional regulation and neural regeneration terms. A few items reference immune signaling or cell cycle processes, which may reflect broader or pleiotropic protein roles, but the cerebellar development theme is dominant. ","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":5},{"id":"GO:0046826","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060020","count":3},{"id":"GO:0050852","count":3}]},{"hash":"476928953597796923","title":"Developmental morphogenesis and cell migration","description":"Top terms indicate roles in tissue remodeling, morphogenesis, and cell movement (sarcomere and ER organization, PDGF-driven migration, angiogenesis-related migration, gastrulation, palatal morphogenesis, tracheal development, collagen remodeling). This combination points to a shared theme of developmental morphogenesis with cell migration rather than a single specific pathway. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0007029","count":2},{"id":"GO:0014909","count":1},{"id":"GO:0036120","count":1},{"id":"GO:0035001","count":1}]},{"hash":"516288235251532183","title":"Unknown","description":"The GO terms associated with this cluster are highly diverse and mostly occur only once (histamine transport, visual perception/behavior, protein adenylylation, chromatin silencing, xenobiotic response), with no single shared function or pathway tying all members together. The absence of edges among proteins (Edges: 0) further suggests there is no coherent functional module to name, so this cluster is best labeled Unknown with no inferred confidence.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051608","count":1},{"id":"GO:0039604","count":1},{"id":"GO:0050908","count":1},{"id":"GO:1900723","count":1},{"id":"GO:0007632","count":1}]},{"hash":"1765535187840222594","title":"Unknown","description":"There are no top GO terms or connections provided for this cluster (no edges, no triangles, and the term list is empty). Without a shared functional signal among proteins, a coherent thematic label cannot be inferred.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"924215762042011178","title":"Starvation-Induced Autophagy and Vesicle Trafficking","description":"Top GO terms center on autophagy-related processes (autophagosome assembly, autophagy of mitochondrion, Cvt pathway) and vesicle trafficking (endocytosis, retrograde transport endosome to Golgi), alongside nutrient-starvation responses (nitrogen and glucose starvation). This points to a cohesive module of autophagy and vesicle trafficking under nutrient stress, with a few outliers like pollen germination and vitamin E response that may reflect broader stress contexts but do not undermine the core theme.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006995","count":1},{"id":"GO:0043652","count":1},{"id":"GO:0032258","count":1},{"id":"GO:0000422","count":1},{"id":"GO:0006897","count":1}]},{"hash":"2167097665212069188","title":"Photosynthesis Electron Transport Proteins","description":"The strongest GO signals are photosynthesis-related (light reaction and electron transport in photosystem I), suggesting these proteins function in chloroplast thylakoid electron transport. Weaker terms related to translation and other cellular processes likely reflect annotation noise or multifunctionality rather than a conflicting primary role.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019684","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006915","count":1},{"id":"GO:1990048","count":1},{"id":"GO:0003341","count":1}]},{"hash":"306179019103604265","title":"Carbohydrate Transport and Sugar Metabolism","description":"The cluster shows multiple GO terms related to sugar handling, including D-glucose transmembrane transport, trehalose transport, and cellular responses to fructose stimulus, indicating a common theme of sugar transport and sugar-related metabolic responses. Other terms are more tangential (uracil catabolism, hormone stimulus response, senescence regulation), but the strongest signal is carbohydrate transport/metabolism, justifying a sugar-focused label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071372","count":2},{"id":"GO:0036245","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0071332","count":1}]},{"hash":"974541746609869939","title":"Craniofacial bone remodeling signaling","description":"The GO terms cluster around craniofacial development and bone-related processes (face morphogenesis, osteoclast development), plus extracellular matrix signaling and growth factor pathways (PDGF receptor signaling, ECM\u2013cell signaling, Rho signaling). These point to ECM-driven remodeling and signaling that shape facial bones and surrounding tissues, with some inflammation-related terms reflecting remodeling contexts.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":2},{"id":"GO:0032271","count":1},{"id":"GO:0010641","count":1},{"id":"GO:0008625","count":1},{"id":"GO:0035023","count":1}]},{"hash":"2266738335949631890","title":"Mitochondrial import and vesicle trafficking","description":"The top terms show mitochondrial processes (cristae formation, mitochondrial Ca2+ homeostasis, IMS protein import) alongside vesicle trafficking activities (SNARE assembly, ER-to-Golgi transport, synaptic vesicle exocytosis, endosome-to-Golgi retrograde transport). This suggests a cohesive theme around intracellular protein targeting and membrane trafficking, linking mitochondrial import to broader vesicle trafficking pathways.","confidence":"Medium","size":12,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042407","count":2},{"id":"GO:0051560","count":2},{"id":"GO:0045041","count":2},{"id":"GO:0016079","count":1},{"id":"GO:0006888","count":1}]},{"hash":"1248950759457748300","title":"Detoxification and stress-response metabolism","description":"The cluster shows strong enrichment for oxidative detoxification, glutathione metabolism, and toxin catabolic processes, plus responses to starvation and nutrient stress. Prostaglandin biosynthesis and calcium-related muscle regulation hints at broader signaling roles, while nucleotide-excision repair indicates DNA maintenance during stress. Together these terms point to a cohesive detoxification and stress-response/metabolic program.","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":9},{"id":"GO:0006749","count":8},{"id":"GO:0009072","count":8},{"id":"GO:0009407","count":8},{"id":"GO:0042594","count":8}]},{"hash":"699985102863745744","title":"Post-transcriptional regulation of translation and splicing","description":"The proteins show enrichment for translation initiation/reinitiation, preinitiation complex formation, miRNA-mediated translational repression, and spliceosome-associated alternative splicing and mRNA stabilization, indicating a cohesive theme of post-transcriptional gene expression control at RNA processing and translation levels. The blastocyst formation term is less central to the core mechanism. ","confidence":"High","size":12,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0001825","count":4},{"id":"GO:0048026","count":3},{"id":"GO:0000380","count":3}]},{"hash":"1260201732911338920","title":"ER Stress and Redox Homeostasis","description":"The cluster is dominated by GO terms for ER-based protein folding and ER stress response, along with redox-focused terms (redox homeostasis, oxidative stress response, oxidant detoxification, deglutathionylation). These together point to a theme of handling protein folding in the ER and maintaining redox balance. Some terms like viral process and transcription regulation appear, but the core cluster aligns with ER protein processing and redox regulation.","confidence":"High","size":12,"edges":24,"triangles":11,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034975","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0045454","count":7},{"id":"GO:0034599","count":7},{"id":"GO:0055114","count":6}]},{"hash":"1851864333893247628","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":63,"triangles":192,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000398","count":2}]},{"hash":"187201515078643357","title":"Chromatin Silencing and Meiotic DNA Replication","description":"The terms point primarily to chromatin organization, heterochromatin formation, and silencing (including silent mating-type loci) alongside DNA replication and recombination during meiosis and genome maintenance (premeiotic/mitotic replication, meiotic recombination nodules, and break-induced replication). The presence of a couple of outlier terms reduces certainty slightly, hence a Medium confidence.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031939","count":1},{"id":"GO:1902450","count":1},{"id":"GO:0090102","count":1},{"id":"GO:0030466","count":1},{"id":"GO:0071466","count":1}]},{"hash":"2121116033172355043","title":"Ribosome biogenesis and translation initiation","description":"The dominant GO terms are about translation processes\u2014initiation, formation of the initiation complex, and translation itself\u2014along with cytosolic ribosome assembly and mRNA capping, indicating a core role in the translational machinery and ribosome biogenesis. A few terms related to RNA processing and some developmental events are present but do not override the central theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006413","count":2},{"id":"GO:0001732","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0000350","count":1}]},{"hash":"548829170535668407","title":"Endosomal-Golgi Vesicle Trafficking Cluster","description":"The GO terms point to intracellular membrane trafficking: endosomal transport and organization, endosome-Golgi routing, vacuolar transport, phagosome-lysosome fusion, and Golgi protein retention, suggesting proteins that coordinate vesicle trafficking and cargo sorting between endosomes, Golgi, and lysosomes. The sporulation-related membrane formation term slightly broadens the context but still fits a membrane-remodeling/trafficking theme. Overall, a cohesive label is \u201cEndosomal-Golgi Vesicle Trafficking Cluster.\u201d","confidence":"Medium","size":12,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":1},{"id":"GO:0007034","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0034498","count":1},{"id":"GO:0090389","count":1}]},{"hash":"541398096775839995","title":"Unknown","description":"The GO terms are scattered across metabolism, cell cycle, neuronal development, signaling, and organelle regulation with no common theme. Only single-term occurrences and no enriched process connect the proteins to a single function, so a coherent label is unreliable.","confidence":"","size":12,"edges":14,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019858","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0070926","count":1},{"id":"GO:0036120","count":1}]},{"hash":"277640549448757408","title":"Chromatin Modification and Transcription Regulation","description":"The dominant GO terms are histone modifications (H3-K36 dimethylation, H2B/H3-K14 acetylation) and transcriptional regulation (positive regulation of transcription from RNA polymerase II promoter, transcription in meiosis, and regulation of histone exchange). This points to a chromatin-regulatory module that modulates gene expression. A few metabolism-related terms are present but do not define the main theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097676","count":1},{"id":"GO:0043969","count":1},{"id":"GO:1900051","count":1},{"id":"GO:0035948","count":1},{"id":"GO:0051039","count":1}]},{"hash":"1703853628918303337","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1902600","count":1},{"id":"GO:0007035","count":1},{"id":"GO:0000350","count":1}]},{"hash":"1146072902845179974","title":"Spliceosome-Mediated Splicing Regulation","description":"The top GO terms cluster around mRNA processing via the spliceosome, including positive regulation of mRNA splicing, various forms of mRNA splicing through the spliceosome, and regulation of alternative splicing. This suggests the proteins are involved in RNA processing and spliceosome-dependent regulation of splicing, with some ancillary terms related to RNA-mediated gene silencing. Overall, the dominant theme is regulation of mRNA splicing by the spliceosome.","confidence":"High","size":12,"edges":57,"triangles":150,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0000398","count":5}]},{"hash":"925965585108237215","title":"COPI-Mediated ER-Golgi Transport","description":"This cluster is dominated by GO terms tied to COPI-coated vesicle budding, COPI coating of Golgi vesicles, ER-to-Golgi vesicle transport, and Golgi ribbon formation, plus protein retention in the ER lumen. These collectively point to a core function in COPI-mediated vesicular trafficking between the ER and Golgi and related Golgi organization. A few terms related to development and behavior are present but appear peripheral to the main trafficking theme. ","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048042","count":1},{"id":"GO:0001893","count":1},{"id":"GO:0035964","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0002121","count":1}]},{"hash":"578002777981012788","title":"Nucleolar RNA Processing and Splicing","description":"The top terms are clearly centered on nuclear RNA handling: RNA splicing (GO:0008380), regulation of alternative splicing via the spliceosome (GO:0000381), and mRNA capping (GO:0006370), with several terms pointing to localization to the nucleolus (GO:1904751, GO:1902570). Although a few terms are obsolete or tangential (e.g., telomere maintenance, DNA ligase activity), the strongest signal is nucleolar/nuclear RNA maturation and processing, justifying this label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904751","count":1},{"id":"GO:0006370","count":1},{"id":"GO:1904876","count":1},{"id":"GO:0007175","count":1},{"id":"GO:0008380","count":1}]},{"hash":"631276187560735319","title":"Calcineurin-NFAT signaling in muscle and brain","description":"The cluster centers on the calcineurin-NFAT signaling cascade, with supporting enrichment for skeletal muscle fiber development and substantia nigra development, suggesting a shared calcium-dependent transcriptional regulation in both muscle and neuronal contexts. Additional terms related to neuronal signaling and stress responses (response to cocaine, adenosine biosynthesis, lead ion response) fit with neuromodulatory and membrane signaling themes, reinforcing the idea of calcium/calmodulin-dependent regulation across tissues. ","confidence":"High","size":12,"edges":61,"triangles":175,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0006685","count":2},{"id":"GO:0030847","count":2},{"id":"GO:0051321","count":2}]},{"hash":"268487883090673239","title":"Vacuolar amino acid transporters","description":"The cluster shows multiple GO terms for transmembrane transport of amino acids across the vacuole membrane (histidine, arginine, serine, tyrosine, lysine, glutamine), plus related ion transport and nutrient-starvation responses, indicating a shared function in vacuolar amino acid transport and homeostasis.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048829","count":1},{"id":"GO:0089708","count":1},{"id":"GO:1990818","count":1},{"id":"GO:0051365","count":1},{"id":"GO:2000487","count":1}]},{"hash":"134326497090695650","title":"Unknown","description":"The terms span DNA replication/repair, post-translational modifications, cytokinesis, development, and metabolism with no shared pathway or clear functional theme; lack of edges and single-term associations prevent deriving a cohesive, specific label. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001170","count":1},{"id":"GO:0000910","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0070212","count":1},{"id":"GO:0085020","count":1}]},{"hash":"359219778996296473","title":"Neuronal morphogenesis and signaling","description":"The cluster\u2019s prominent terms center on neural development and architecture\u2014dendrite morphogenesis, establishment/maintenance of bipolar cell polarity, and visual learning\u2014along with JUN phosphorylation as a signaling readout. Related terms like PDGF response and Golgi inheritance support cell signaling and trafficking relevant to neuron structure, while metabolic terms appear ancillary. This suggests a theme of neuronal differentiation and morphology with associated signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019858","count":7},{"id":"GO:0000320","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0070926","count":7},{"id":"GO:0036120","count":7}]},{"hash":"1128244662799383877","title":"Golgi-ER vesicle trafficking and secretion","description":"The proteins cluster around intracellular transport processes involving the Golgi and ER (Golgi ribbon formation, ER-to-Golgi transport, endosome-to-Golgi and autophagosome maturation, Cvt pathway), and extend to synaptic and secretory functions (receptor localization to synapse, synaptic vesicle priming, norepinephrine secretion, immunoglobulin production). This points to a cohesive role in vesicle trafficking through the secretory pathway and regulated secretion at synapses, with autophagic/endosomal trafficking also represented. ","confidence":"High","size":12,"edges":12,"triangles":3,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0090161","count":3},{"id":"GO:0006888","count":2},{"id":"GO:0097352","count":2},{"id":"GO:1902685","count":2}]},{"hash":"677273677409416788","title":"Tissue remodeling and signaling","description":"This cluster shows GO terms tied to tissue remodeling across contexts (bone formation/remodeling, decidualization) and broad signaling processes (thyroid hormone response, Wnt-related signaling, regulation of catalytic activity), plus immune/inflammatory aspects (T cell cytotoxicity, bradykinin degradation). The common thread is involvement in remodeling and signaling across different tissues, rather than a single specific function, so a broad label like \u201cTissue remodeling and signaling\u201d fits best. ","confidence":"Medium","size":12,"edges":29,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050790","count":3},{"id":"GO:0051603","count":3},{"id":"GO:0046697","count":3},{"id":"GO:0001957","count":3},{"id":"GO:2000179","count":3}]},{"hash":"864747779013621441","title":"RNA Pol II transcription and DNA repair","description":"The cluster\u2019s top GO terms center on RNA polymerase II transcription initiation (open complex formation, promoter clearance) and nucleotide-excision repair, with supporting signals from mRNA quality control and broader stress/developmental processes. This pattern suggests proteins involved in transcription regulation together with genome maintenance functions, rather than a single isolated pathway.","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001113","count":4},{"id":"GO:0006289","count":4},{"id":"GO:0001111","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0000184","count":4}]},{"hash":"209972082632748431","title":"Craniofacial neural crest and eye development","description":"This cluster centers on embryonic cranial skeleton morphogenesis and eye/visual system development, including retina-associated terms and motor neuron axon fasciculation, suggesting a shared role in craniofacial neural crest\u2013derived structures and neural-visual development. While some terms are general signaling or immune-related, the dominant theme is neuro-ocular and craniofacial formation.","confidence":"High","size":12,"edges":37,"triangles":36,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048701","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0070926","count":9},{"id":"GO:0036120","count":9}]},{"hash":"1945216850224334883","title":"Ubiquitination and Transcription Regulation Network","description":"This cluster is dominated by ubiquitin-related processes (free ubiquitin chain polymerization, protein autoubiquitination) and transcriptional regulation by RNA polymerase II (positive and negative regulation). Additional terms point to Rho GTPase signaling and GTPase activity, suggesting a cohesive module linking post-translational modification to signaling and transcription control. Some terms (nucleotide-excision repair, oleic acid response) hint at broader stress-related roles but do not undermine the central theme. ","confidence":"Medium","size":12,"edges":11,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":2},{"id":"GO:0010994","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0043547","count":2}]},{"hash":"773630331278225037","title":"Vesicle trafficking and ciliogenesis factors","description":"Based on GO terms such as COPII-coated vesicle cargo loading, intraflagellar transport involved in cilium assembly, and nuclear pore complex assembly, this cluster appears enriched for intracellular transport and assembly processes. Positive regulation of GTPase activity also aligns with trafficking dynamics, while the other terms (viral process, meiotic cell cycle, extrinsic apoptotic signaling) may reflect broader regulatory roles or annotation noise rather than a single cohesive function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0031030","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0090110","count":2},{"id":"GO:0000188","count":2}]},{"hash":"480465464148202475","title":"Epithelial Actin Cytoskeleton and Trafficking","description":"The top GO terms point to actin dynamics (nucleation, capping, terminal web) and ER-Golgi transport, with roles in epithelial absorption (intestinal glucose, renal protein) and morphogenesis (lung, neurocranium, neuron projection). Together they suggest a cohesive theme: actin remodeling supports vesicle trafficking and apical functions in epithelial tissues, with developmental contexts.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060463","count":1},{"id":"GO:0097017","count":1},{"id":"GO:0045010","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0051694","count":1}]},{"hash":"901915869076527101","title":"Neural synapse formation and Rac signaling","description":"The prominent GO terms cluster around brain development, synapse assembly, and regulation of synaptic vesicle exocytosis, with Rac protein signal transduction pointing to cytoskeletal remodeling essential for neural connectivity. This suggests the proteins are mainly involved in neural synapse formation and vesicle trafficking, despite some peripheral terms related to vascular remodeling or immune cell processes.","confidence":"Medium","size":12,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0060313","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0010796","count":2}]},{"hash":"2032737455829476067","title":"Neural development and synaptic signaling","description":"The cluster is dominated by neural-related terms: excitatory postsynaptic potential, visual perception, axonogenesis, long-term synaptic potentiation, and Schwann cell development, which together point to neural development and synaptic function/plasticity. Some terms (e.g., abscisic acid-activated signaling, heart development) are less directly connected and may reflect broad or cross-species annotations, but the core theme remains neural development and synaptic activity.","confidence":"High","size":12,"edges":20,"triangles":9,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0014044","count":7},{"id":"GO:0010800","count":7}]},{"hash":"1433085293700660661","title":"Unknown","description":"The terms are scattered across RNA turnover (non-stop decay), defense responses (fungus/virus), metabolism and development (lateral root, liver, post-embryonic), with no clear shared function linking the proteins. The absence of edges and the diverse GO terms argue against a coherent, single-biological-process cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070481","count":1},{"id":"GO:0050832","count":1},{"id":"GO:0010264","count":1},{"id":"GO:0052746","count":1},{"id":"GO:0030643","count":1}]},{"hash":"381576229175497465","title":"Bacterial Lipid and Energy Metabolism","description":"These proteins map to a set of GO terms centered on fatty acid biosynthesis and metabolism (including very long-chain fatty acids), acetyl-CoA\u2013related pathways (acetyl-CoA from acetate, pyruvate fermentation to acetate), and related catabolic processes (phenylacetate, malonate), plus lipoteichoic acid biosynthesis. The mix suggests a broad bacterial metabolic theme with emphasis on lipid-related pathways and energy production, rather than a single highly specific function; the absence of edges indicates diverse sub-functions within this broader theme. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0006633","count":1},{"id":"GO:0000038","count":1},{"id":"GO:0010124","count":1}]},{"hash":"115573973896679165","title":"Tissue Morphogenesis and Development","description":"GO terms focus on development and morphogenesis across multiple tissues (skin, bone ossification, kidney glomerular basement membrane, vasculature), with some ancillary terms on protein complex assembly and lipoprotein clearance. The core theme is broad tissue morphogenesis rather than a single pathway, and there are no observed interactions among these proteins, supporting a functional grouping by developmental category.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0034381","count":1},{"id":"GO:0060414","count":1},{"id":"GO:0033034","count":1}]},{"hash":"455148491748306140","title":"Actin Nucleation and Membrane Targeting Regulation","description":"This cluster centers on actin cytoskeleton dynamics and membrane-related processes, highlighted by terms for actin nucleation (and its positive regulation) and protein targeting to membranes, plus membrane raft distribution. While a few terms touch broader developmental or vascular pathways, the common theme is coordinated actin assembly with membrane localization, suggesting proteins that regulate cytoskeletal remodeling at the membrane.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":1},{"id":"GO:0044656","count":1},{"id":"GO:0032836","count":1},{"id":"GO:0035166","count":1},{"id":"GO:0031276","count":1}]},{"hash":"890352775254435685","title":"Mitochondrial respiration and amino acid metabolism","description":"This cluster's top GO terms heavily skew to mitochondrial electron transport (NADH to ubiquinone) and complex II assembly, suggesting a role in energy production. The other terms point to amino acid biosynthesis and catabolism (leucine, isoleucine, valine) and folic acid biosynthesis, indicating a broader metabolic cluster centered on mitochondria-associated metabolism. The combination implies a cohesive functional theme around energy generation linked to amino acid metabolism.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0019478","count":1},{"id":"GO:0010817","count":1},{"id":"GO:0009098","count":1}]},{"hash":"239489905671868297","title":"Unknown","description":"The top GO terms are scattered across transcription regulation (RNA Pol II/III) and several unrelated developmental or signaling processes (spinal cord development, acrosome assembly, pancreatic cell maturation, ascospore formation), and there are no edges linking the proteins. This suggests a lack of a coherent shared function for the cluster.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070898","count":1},{"id":"GO:0045945","count":1},{"id":"GO:0060261","count":1},{"id":"GO:0007329","count":1},{"id":"GO:0060395","count":1}]},{"hash":"996603023433807777","title":"Epithelial Polarity and Actin-Driven Cell Migration","description":"These proteins cluster around epithelial cell polarity establishment and actin cytoskeleton\u2013driven migration. Top GO terms center on establishing epithelial polarity, cell migration, and actin filament bundle assembly, supported by signaling processes like Rho-mediated cytoskeletal regulation and PDGF pathway responses, and membrane trafficking via caveolin-mediated endocytosis. The combination suggests a module coordinating polarity cues with actin remodeling to promote directional movement of epithelial cells.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0010951","count":1},{"id":"GO:0050819","count":1}]},{"hash":"321002742149000230","title":"CoA biosynthesis and membrane transport proteins","description":"The cluster\u2019s GO terms point to metabolic activity (coenzyme A biosynthesis, methylation, phosphorylation/dephosphorylation) and multiple membrane transport processes (4-hydroxyphenylacetate transport, nitrite transport, sodium ion transmembrane transport). This suggests a group of proteins involved in core metabolism and transport across membranes, rather than a single cohesive pathway. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":1},{"id":"GO:0070584","count":1},{"id":"GO:1904251","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0032259","count":1}]},{"hash":"1555604093263347107","title":"Immune cell lineage development","description":"Based on GO terms such as granulocyte differentiation, T cell differentiation in thymus, alpha-beta T cell differentiation, and hematopoietic stem cell proliferation, the cluster appears connected to immune system development and blood cell lineage specification. A few terms (e.g., seed development, plant-related processes, glutathione transport) seem unrelated or noisy, but the strongest signal is immune differentiation, supporting a label centered on immune/hematopoietic lineage development.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903955","count":1},{"id":"GO:0046638","count":1},{"id":"GO:0030851","count":1},{"id":"GO:0033077","count":1},{"id":"GO:0071425","count":1}]},{"hash":"2085872126520607849","title":"Unknown","description":"The terms are heterogeneous (sugar catabolic processes, ER-Golgi transport, and immune responses like phagocytosis and pyroptosis) with no clear single function tying all 11 proteins together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0050766","count":1},{"id":"GO:0042355","count":1},{"id":"GO:0019509","count":1},{"id":"GO:0019571","count":1}]},{"hash":"1069088712234609039","title":"Translation Machinery and mRNA Turnover","description":"The cluster is dominated by translation-related GO terms (translation, initiation, termination, elongation, and selenocysteine incorporation) plus mRNA regulation/decay (deadenylation-dependent decay and cytoplasmic mRNA turnover), pointing to a cohesive module of ribosome-associated protein synthesis and mRNA quality control. Some terms like glial cell proliferation, pinocytosis, and response to antibiotic appear but are less central to the core theme.","confidence":"Medium","size":11,"edges":40,"triangles":74,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006413","count":3},{"id":"GO:0006415","count":3},{"id":"GO:0006907","count":3},{"id":"GO:2000767","count":2}]},{"hash":"1977190086658430053","title":"Ribosome Biogenesis and Translation","description":"The top GO terms revolve around large-subunit biogenesis, preribosome assembly, rRNA maturation, and translation, indicating a primary focus on ribosome production and protein synthesis. Some additional terms on RNA silencing and splicing regulation may reflect broader RNA-processing roles or secondary connections within this group.","confidence":"High","size":11,"edges":9,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":6},{"id":"GO:1902626","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0016441","count":3},{"id":"GO:0002181","count":2}]},{"hash":"1284925261734444302","title":"Glycan and cell wall biosynthesis","description":"The top terms cluster around synthesis of glycans and cell wall components, including lipopolysaccharide, O antigen, GDP-mannose, and glycogen biosynthetic processes, which points to bacterial glycan production and cell wall assembly as the core theme. Translation and pyruvate metabolism terms appear secondary, but do not override the dominant glycan/cell-wall signal. ","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0006090","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0006148","count":2}]},{"hash":"2055308325317207757","title":"ER-Golgi trafficking and mitotic growth","description":"Top GO terms point to secretory pathway transport (ER\u2013Golgi, COPII budding, endosome\u2013Golgi, retrograde ER\u2013Golgi) alongside cell-cycle and growth functions (mitotic division, spindle assembly, development, proliferation). This cluster appears to mix secretory trafficking components with proliferative/developmental roles, suggesting a general role in both processes rather than a single narrow function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0034498","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0000278","count":2}]},{"hash":"736065552953494588","title":"ER-Golgi Trafficking and Membrane Signaling","description":"The top GO terms point to processes in the secretory pathway (ER to Golgi transport, ER membrane organization) and membrane-associated signaling (receptor-mediated endocytosis, ERBB2 signaling, Rho signaling). This suggests a cohesive theme around secretory trafficking coupled with membrane signaling, even though a couple of terms (centriole elongation, regulation of mismatch repair) are less connected and may reflect peripheral roles or annotation noise.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0032425","count":1},{"id":"GO:2000203","count":1},{"id":"GO:0035023","count":1},{"id":"GO:1905433","count":1}]},{"hash":"1013342861192647505","title":"Developmental transcription and signaling","description":"This cluster combines developmental processes (forebrain, skeletal system, multicellular organism development) with transcriptional regulation and several signaling-related activities (GTPase regulation, tyrosine phosphorylation, TGF-beta response), plus a stress-induced apoptotic pathway, suggesting proteins involved in developmental gene regulation and associated signaling rather than a single specific function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0070059","count":3}]},{"hash":"1176279514364618423","title":"Lung morphogenesis and alveolar development","description":"Based on the top GO terms, the strongest signal is for lung-related development and morphogenesis (lung alveolus development, epithelial cell proliferation involved in lung morphogenesis, and smooth muscle tissue development). A few terms pertain to immune regulation (IL-10 production, IgE isotype regulation, T cell anergy), which may reflect broader regulatory roles, but the dominant theme is lung structure formation and alveolar/morphogenetic processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032693","count":1},{"id":"GO:0021758","count":1},{"id":"GO:0048745","count":1},{"id":"GO:0048286","count":1},{"id":"GO:0048294","count":1}]},{"hash":"868779735257666158","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1414609823965912904","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":23,"triangles":35,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0048701","count":10},{"id":"GO:0048026","count":7},{"id":"GO:0016441","count":6},{"id":"GO:0042273","count":6}]},{"hash":"994358860964619920","title":"Neurodevelopmental signaling and transcription","description":"The top GO terms point to brain development (cerebellar cortex and hippocampus) and heart development, alongside transcription-related processes (DNA-templated transcription) and signaling (insulin receptor signaling, phosphorylation). This suggests a theme centered on neurodevelopment with associated transcriptional and signaling activities, though some terms (e.g., rRNA maturation, ER targeting) reflect broader cellular functions. Confidence is moderate given the mix of brain-specific and general terms.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":2},{"id":"GO:0021695","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1242343491064666552","title":"Ribosome biogenesis and rRNA maturation","description":"This cluster is enriched for ribosome-related processes: ribosome biogenesis, large subunit preribosome assembly, LSU rRNA maturation, and related assembly steps, along with RNA processing signals (splicing regulation, ncRNA processing). These together point to a shared role in ribosome production and maturation, with supporting RNA processing activities.","confidence":"High","size":11,"edges":44,"triangles":105,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0042273","count":4},{"id":"GO:1902626","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0042254","count":3}]},{"hash":"216019898502513361","title":"Unknown","description":"The proteins in this cluster show a highly diverse set of GO terms\u2014ranging from translation to pH response, zinc ion response, sensory bitter taste detection, and various developmental processes. There is no clear, shared function or pathway linking the terms, so a specific functional label isn\u2019t reliably supported.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0032849","count":1},{"id":"GO:0001580","count":1},{"id":"GO:2001150","count":1},{"id":"GO:0009268","count":1}]},{"hash":"1367606017713158156","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":2},{"id":"GO:0015886","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0019835","count":2}]},{"hash":"1261788655288818313","title":"Vacuolar acidification by V-ATPase","description":"The GO terms are dominated by vacuolar functions: proton transport, V-type ATPase assembly, and vacuolar acidification, supported by related processes like vacuolar sequestration and polyphosphate metabolism, suggesting a core role in vacuolar proton pumping and degradation pathways; a single outlier term (PDGF receptor signaling) is likely incidental.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015986","count":1},{"id":"GO:0043181","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0070072","count":1},{"id":"GO:0007035","count":1}]},{"hash":"1575113843237842979","title":"DNA replication and mitotic cell cycle proteins","description":"The cluster is strongest for mitotic cell cycle and DNA replication terms (GO:0000278 = 8; GO:0006260 = 7; re-entry into mitotic cell cycle = 6), with supporting signals from cytosine metabolic process and Golgi inheritance. Occasional visual perception/learning terms appear, likely as annotation noise or multifunctional roles, but the dominant theme ties to cell-cycle progression and genome duplication.","confidence":"Medium","size":11,"edges":23,"triangles":16,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0019858","count":6},{"id":"GO:0000320","count":6}]},{"hash":"1516285430975851133","title":"Hydrogen sulfide and cysteine biosynthesis","description":"The top GO terms cluster around sulfur amino acid metabolism: hydrogen sulfide biosynthesis, transsulfuration, cysteine biosynthesis, and homocysteine catabolism, indicating H2S production and cysteine-related metabolism as the core function of these proteins. Some terms like pyruvate and fatty acid biosynthesis suggest broader central metabolism or annotation noise, but the dominant theme is sulfur amino acid pathway activity.","confidence":"High","size":11,"edges":44,"triangles":87,"max_degree":10,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070814","count":5},{"id":"GO:0042866","count":5},{"id":"GO:0019346","count":5},{"id":"GO:0019343","count":5},{"id":"GO:0019518","count":5}]},{"hash":"71595551594417165","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031126","count":1},{"id":"GO:0090503","count":1},{"id":"GO:0017001","count":1},{"id":"GO:0098789","count":1},{"id":"GO:0009395","count":1}]},{"hash":"1724881325374973457","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043630","count":1},{"id":"GO:0048451","count":1},{"id":"GO:0071050","count":1},{"id":"GO:0042245","count":1},{"id":"GO:0001680","count":1}]},{"hash":"393573484359989588","title":"Unknown","description":"The GO terms span amino acid biosynthesis, development, metal transport, gene expression, cuticle formation, and stress responses, with no single dominant function tying the proteins together.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":1},{"id":"GO:0000105","count":1},{"id":"GO:0000162","count":1},{"id":"GO:0035987","count":1},{"id":"GO:0098706","count":1}]},{"hash":"327911110066207467","title":"LDL receptor regulation and peptide processing","description":"The dominant GO terms point to regulation of LDL receptor catabolic activity and receptor recycling, implying a core theme of LDL receptor trafficking. Additional terms touch on peptide processing and hormone-related production, suggesting a broader, but loosely connected, theme of peptide maturation alongside receptor regulation.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032804","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0007323","count":2},{"id":"GO:0034230","count":2},{"id":"GO:1905598","count":2}]},{"hash":"1245688461134690658","title":"Spindle Microtubule Nucleation","description":"The top GO terms point to microtubule nucleation by the spindle pole body and gamma-tubulin complex localization, plus mitotic spindle assembly. This pattern suggests proteins in this cluster function to initiate and organize microtubules for spindle formation during mitosis, hence a label centered on spindle-associated microtubule nucleation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051417","count":1},{"id":"GO:0033566","count":1},{"id":"GO:0051415","count":1},{"id":"GO:0090307","count":1}]},{"hash":"499507893413067663","title":"Insect lipid metabolism and adipogenesis","description":"This cluster is enriched for lipid-related GO terms: monounsaturated fatty acid biosynthetic process, sphingosine and sphinganine metabolic processes, response to fatty acids, and white fat cell differentiation. Together these point to lipid biosynthesis and adipogenic-like differentiation in insect tissues (e.g., fat body), with some peripheral terms like tarsal gland development contributing less to the core theme. Confidence is high because the majority of terms consistently indicate lipid metabolism and adipogenesis.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":3},{"id":"GO:0010205","count":2},{"id":"GO:0050872","count":2},{"id":"GO:1903966","count":2},{"id":"GO:0033561","count":2}]},{"hash":"2016302691865172371","title":"Endosome-lysosome transport and vesicle priming","description":"Based on the GO terms, this cluster centers on vesicle trafficking and membrane dynamics, highlighted by endosome-to-lysosome transport, lysosome localization, and autophagy, with supporting signals in vesicle priming and membrane localization across neuronal and platelet contexts. This suggests a cohesive theme around vesicle trafficking pathways extending to degradation and synaptic/platelet-related processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006914","count":1},{"id":"GO:0035855","count":1},{"id":"GO:0007274","count":1}]},{"hash":"1239522903421517052","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0001732","count":1},{"id":"GO:0045948","count":1},{"id":"GO:0051301","count":1},{"id":"GO:1905143","count":1}]},{"hash":"1106567403351322865","title":"Unknown","description":"No GO terms and no interactions connect the 11 proteins, so there is no clear functional theme to label the cluster with a concise name.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"814762951528002059","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0042790","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006362","count":1},{"id":"GO:0070481","count":1}]},{"hash":"600979694422810829","title":"Unknown","description":"The top GO terms are diverse, spanning actin cortical patch localization, ruffle assembly, cell polarity, Golgi to plasma membrane transport, nutrient and vitamin transport, pH changes, and responses to toxins, with no clear shared function or pathway. There are no edges or strong connections among the proteins, suggesting no cohesive biological theme for this cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900027","count":1},{"id":"GO:0051666","count":1},{"id":"GO:2001247","count":1},{"id":"GO:0007584","count":1},{"id":"GO:2000114","count":1}]},{"hash":"32185652503642432","title":"Cardiac and Neuronal Electrophysiology","description":"This cluster\u2019s GO terms center on electrical signaling and nerve\u2013heart communication\u2014neuronal action potentials, neurotransmitter transport, membrane hyperpolarization/repolarization, and regulation of heart rate by cardiac conduction\u2014with a few developmental terms that may reflect shared programs or annotation noise. The dominant theme is electrophysiology and synaptic signaling in heart and nervous system, supporting this label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003344","count":2},{"id":"GO:0043149","count":1},{"id":"GO:0021759","count":1},{"id":"GO:0086091","count":1},{"id":"GO:0006836","count":1}]},{"hash":"1146588451447171276","title":"RNA Polymerase and Translation Machinery","description":"The top GO terms cluster around the assembly and function of transcription machinery (RNA polymerases I, II, and III and their core complexes) as well as translation-related processes (translation, prolyl-tRNA aminoacylation, and translational fidelity). Additional terms for protein folding and tubulin complex assembly suggest participation in broader macromolecular assembly that underpins gene expression. Taken together, this cluster appears to represent components involved in assembling and coordinating transcription and translation machinery.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0006433","count":1},{"id":"GO:0031137","count":1},{"id":"GO:1990115","count":1}]},{"hash":"534189000747896319","title":"Fatty acid transport and beta-oxidation","description":"This cluster centers on carnitine-dependent transport and fatty acid oxidation, with terms for long- and medium-chain FA metabolism and acyl-CoA oxidase\u2013driven beta-oxidation, implying a cohesive set of proteins involved in FA handling and energy production. A couple of non-metabolic terms appear, but the primary theme is FA metabolism.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019254","count":1},{"id":"GO:0032000","count":1},{"id":"GO:0015909","count":1},{"id":"GO:0033540","count":1},{"id":"GO:0051791","count":1}]},{"hash":"1543334460297563904","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms related to ribosome biogenesis (ribosome biogenesis, small subunit biogenesis), cytoplasmic translation, and tRNA modification, pointing to components of the protein synthesis machinery. Additional terms like cell cycle/division and septum assembly suggest coordination with growth and proliferation, but the core theme remains ribosome assembly and translation. Obsolete iron homeostasis is present but not central to the main function.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090529","count":2},{"id":"GO:0055072","count":2},{"id":"GO:0015684","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1913596833218305472","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":15,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":1},{"id":"GO:0016180","count":1},{"id":"GO:0035194","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0006364","count":1}]},{"hash":"2949608701351596","title":"Plant vacuolar amino acid and ion transporters","description":"The cluster's top GO terms are dominated by transmembrane export/import from vacuoles for multiple amino acids (histidine, arginine, serine, tyrosine, lysine) and ion transport (potassium, lithium) along with glutamine transport, pointing to a shared function as vacuolar transport proteins in plant cells. Peripheral terms like root cap development and mRNA export do not override the central theme.  ","confidence":"High","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0048829","count":2},{"id":"GO:0089708","count":2},{"id":"GO:1990818","count":2},{"id":"GO:0051365","count":2}]},{"hash":"929788768883340846","title":"Developmental Signaling and Differentiation","description":"This cluster shows GO terms centered on development (zygote asymmetric division, heart rudiment formation, fat cell differentiation) and signaling processes (intracellular signal transduction, GPCR desensitization, catecholamine secretion), suggesting proteins involved in developmental signaling and lineage specification. Some terms like glycerol metabolism and myelination are more peripheral but fit into the broader theme of development and neural-related signaling. Overall, a developmental signaling/differentiation theme fits best, despite the lack of apparent network connections.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006071","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0085033","count":1},{"id":"GO:0033605","count":1},{"id":"GO:0060394","count":1}]},{"hash":"1812887468336593218","title":"Dopamine signaling and neural morphogenesis","description":"The top GO terms cluster around dopamine response and dopamine receptor signaling, neural development events such as nerve branching and neuronal migration, and associated intracellular trafficking and signaling pathways (endosome-Golgi transport, ubiquitination, CAMKK-AMPK). This suggests a cohesive function in dopamine-mediated neural signaling and morphogenesis.","confidence":"Medium","size":10,"edges":10,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903125","count":3},{"id":"GO:1905279","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1774244726768192914","title":"ER Stress Response and Nuclear Transcription Regulation","description":"Top GO terms point to ER-related protein folding and ER stress response, with additional hints of nuclear processes (DNA-templated transcription, transcription regulation, and nuclear transport) and redox-related modification (deglutathionylation). This pattern suggests a cluster of proteins that function at the interface of ER proteostasis and transcriptional/nuclear signaling under stress.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033158","count":1},{"id":"GO:0034975","count":1},{"id":"GO:0046826","count":1},{"id":"GO:1903206","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1401785799934572908","title":"Vesicle trafficking and organelle dynamics","description":"The cluster is dominated by GO terms tied to vesicle trafficking and organelle function\u2014endocytosis (clathrin-dependent), macropinocytosis, endosome organization, membrane fusion, and Golgi protein retention\u2014pointing to a cohesive theme of membrane trafficking and organelle remodeling. Some terms like cytochrome c release, coronary vasculature development, and interferon response appear as outliers, likely reflecting broader cellular signaling or stress contexts rather than the core trafficking role. Overall, the strongest signal is vesicle trafficking and organelle dynamics.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001836","count":1},{"id":"GO:0060976","count":1},{"id":"GO:0016559","count":1},{"id":"GO:1901998","count":1},{"id":"GO:0044351","count":1}]},{"hash":"1610853770639983509","title":"Neuronal energy metabolism and mitochondrial regulation","description":"The top GO terms point to mitochondrial functions (ADP transport, regulation of membrane potential) and oxidative stress responses, plus neuron-related processes (long-term synaptic potentiation and phosphorylation regulation). Manganese transport and pyridoxal phosphate transport further support a role in neuronal metabolic handling, consistent with energy production and redox balance in neurons.","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":4},{"id":"GO:0034198","count":3},{"id":"GO:0097274","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0010800","count":3}]},{"hash":"1928711906691654813","title":"Organelle Protein Import and Aerobic Respiration","description":"This cluster\u2019s GO terms mainly point to targeting and importing proteins into organelles (mitochondrial matrix/inner membrane, chloroplast stroma) and to energy/metabolic processes (aerobic respiration, proton transport). Although a few terms are unrelated or obsolete, the dominant signal is organelle protein import coupled with respiration, suggesting a cohesive function around assembling organelle-projected energy pathways.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0000002","count":1},{"id":"GO:0045037","count":1},{"id":"GO:0030150","count":1}]},{"hash":"712177350489897586","title":"Chromatin organization and centromere/condensation regulation","description":"Most of the top GO terms cluster around chromatin organization: heterochromatin formation, subtelomeric heterochromatin formation, regulation of chromosome condensation, and maintenance of mitotic sister chromatid cohesion, along with centromere complex assembly regulation. A couple of terms related to development (midbrain morphogenesis, spermatogenesis) appear, but the dominant signal is chromatin and chromosome architecture control, suggesting a chromatin-structure\u2013centered cluster.","confidence":"Medium","size":10,"edges":39,"triangles":81,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1900446","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0031509","count":2}]},{"hash":"782839618190141278","title":"Golgi-ER vesicle trafficking and fusion","description":"Top GO terms indicate a cohesive set of proteins involved in ER-to-Golgi and intra-Golgi vesicle transport, Golgi membrane fusion, and Golgi ribbon formation, with additional links to vacuole fusion and macroautophagy. This points to a core function in Golgi-related vesicular trafficking and membrane fusion, rather than broad cytoskeletal regulation. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000747","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0006891","count":2},{"id":"GO:0042144","count":2}]},{"hash":"1365819775445660982","title":"Chromatin modification and transcription regulation","description":"The top GO terms point to histone acetylation and regulation of RNA polymerase II transcription, suggesting chromatin-level control of gene expression; the other terms are outliers (phosphate transport and alginic acid catabolism) and may reflect annotation noise.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006817","count":1},{"id":"GO:0043982","count":1},{"id":"GO:0043966","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0043983","count":1}]},{"hash":"2303708548508318178","title":"Bacterial central carbon and amino acid metabolism","description":"The top GO terms center on metabolic processes involving carbon flow and amino acid biosynthesis/catabolism (glyoxylate cycle, pyruvate catabolic/fermentation, valine biosynthesis, lysine biosynthesis), with supporting pathways in NAD and heme biosynthesis (quinolinate, protoporphyrinogen IX). Regulatory or stress-related terms such as SOS response and cellular response to cAMP appear secondary. Taken together, these terms point to a cohesive metabolic module rather than a single pathway, justifying a label around central carbon and amino acid metabolism.","confidence":"Medium","size":10,"edges":17,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009436","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0019805","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006782","count":2}]},{"hash":"1190566185845293454","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000472","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000398","count":3}]},{"hash":"2255083120799448367","title":"ER Protein Folding and ERAD Quality Control","description":"The cluster is dominated by GO terms related to endoplasmic reticulum quality control: protein folding in the ER, misfolded protein transport, and the ubiquitin-dependent ERAD pathway, along with post-translational targeting to membranes. Additional terms like response to heat and cellular response to heat support an ER stress/heat-shock context, suggesting these proteins function together in managing protein folding and degradation in the ER. Some terms (DNA replication, protein complex oligomerization) are more general, but the strongest signal is ER-associated quality control.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:1900035","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0009408","count":3}]},{"hash":"144421896624323072","title":"RNA Modification and Processing","description":"This cluster is best captured by RNA nucleotide modification terms that recur in the top GO terms (tRNA methylation, tRNA thio-modification, rRNA methylation, cytidine editing). While there are a few metabolism-related terms (thiamine and thiazole biosynthesis) present, the most consistent signal is RNA modification/processing. The lack of edges suggests dispersed annotations, but the shared RNA modification theme justifies this label.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009229","count":1},{"id":"GO:0030488","count":1},{"id":"GO:0034227","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0016554","count":1}]},{"hash":"270622951716310997","title":"Cell cycle and DNA replication regulation","description":"The cluster centers on nuclear processes: DNA replication (GO:0006260), centrosome cycle (GO:0007098), positive regulation of nuclear cell cycle DNA replication (GO:0010571), and DNA-templated transcription (GO:0006351), plus related nuclear transport regulation (GO:0046826). While there are some outliers related to development and other processes, the dominant terms point to cell-cycle control and replication machinery within the nucleus. This supports labeling the cluster as primarily involved in cell-cycle\u2013 and DNA-replication\u2013related nuclear functions.","confidence":"Medium","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030026","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0048701","count":3}]},{"hash":"994095928598214311","title":"RNA Pol II Transcription Regulation","description":"The cluster shows a strong signal for RNA polymerase II\u2013mediated transcription regulation, including DNA-templated transcription, preinitiation complex assembly, and transcription elongation, with supporting links to mRNA export and RNA processing; other terms point to broader protein quality control and oxidative stress responses, but transcription regulation is the main theme.","confidence":"Medium","size":10,"edges":16,"triangles":13,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0031117","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0032968","count":2}]},{"hash":"1576589204523262183","title":"Unknown","description":"The set includes multiple distinct biological themes: several small-molecule catabolic pathways (ethanol, GABA, putrescine), a vitamin A\u2013related retinol metabolism term, a biosynthetic process (proline), and developmental patterning terms (nose development, bilateral symmetry). There is no unambiguous, common function tying these together, so a single coherent label cannot be assigned.","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":4},{"id":"GO:0055129","count":4},{"id":"GO:0006069","count":4},{"id":"GO:0009447","count":4},{"id":"GO:0006068","count":4}]},{"hash":"2064079662878142831","title":"Mitotic Cell Cycle Regulation","description":"Interpretation: Most GO terms point to cell cycle control and mitotic progression: G1/S transition, re-entry into the cell cycle, G2/M transition, and histone H3-S10 phosphorylation linked to chromosome condensation, plus regulation of cyclin-dependent kinase activity. Canonical Wnt signaling and terms about epithelial proliferation support a broader proliferative signaling theme. Some items (late viral transcription, autophagy initiation) are less directly tied to mitosis but can intersect with cell cycle contexts. Overall, the cluster appears to capture proteins involved in driving cell cycle progression and proliferative signaling.","confidence":"Medium","size":10,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060070","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0000320","count":2},{"id":"GO:0000086","count":2},{"id":"GO:2000775","count":2}]},{"hash":"1500597057465740964","title":"Bacterial lipid metabolism and siderophore biosynthesis","description":"The top GO terms cluster around fatty acid and acyl-CoA metabolism (long/medium chain, palmitic acid biosynthesis) and catabolic processes, plus enterobactin biosynthesis. This suggests a bacterial metabolic module centered on lipid metabolism with siderophore production, with a few regulatory terms that are less central to the main theme. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045717","count":2},{"id":"GO:0035338","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0051792","count":2},{"id":"GO:0036116","count":2}]},{"hash":"994297646006096840","title":"Diverse solute transmembrane transport","description":"Based on the Top Terms, the cluster is enriched for various transmembrane transport processes, spanning xenobiotics, vitamins, carbohydrates, metal ions (cobalt), teichoic acid, phospholipids, ceramide, taurine, anion transport, and regulation of cholesterol absorption. This suggests a group of membrane transport proteins with a broad substrate range or related transport pathways, all centering on moving solutes across membranes. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":6},{"id":"GO:0035461","count":6},{"id":"GO:0008643","count":5},{"id":"GO:0006824","count":5},{"id":"GO:0015777","count":5}]},{"hash":"168894006677594706","title":"Lipid Metabolism and Transport","description":"The cluster centers on lipid-related processes: triglyceride catabolism, cholesterol transport, ceramide biosynthesis, and oxylipin biosynthesis, suggesting a lipid metabolism/signaling theme; a few development or mechanosensory terms appear as noise, but lipid functions dominate.","confidence":"Medium","size":10,"edges":28,"triangles":19,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":1},{"id":"GO:0032376","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0046513","count":1},{"id":"GO:0072177","count":1}]},{"hash":"1109155069027818984","title":"Cardiovascular morphogenesis and cell migration","description":"This cluster centers on processes of tissue and organ development with a focus on migration and morphogenesis in the cardiovascular system and related structures. Terms include smooth muscle cell migration, aortic valve morphogenesis, endocardial cushion formation, and lung branching morphogenesis, plus regulators of signaling pathways such as PDGF receptor signaling and prostaglandin biosynthesis, as well as modulation of chemotaxis and endocytosis. Overall, the proteins appear to participate in coordinated morphogenetic and migratory events across multiple organs, especially heart and vasculature, with supporting signaling and inflammatory regulation.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":2},{"id":"GO:0060489","count":2},{"id":"GO:0010641","count":2},{"id":"GO:2001027","count":2},{"id":"GO:0001516","count":2}]},{"hash":"994004196952881893","title":"Vertebrate Development and Stress Response","description":"The top GO terms cluster around vertebrate development (neural tube closure, forebrain development, skeletal system development, multicellular organism development) and cellular stress responses (cadmium ion response, ER-stress\u2013triggered apoptotic signaling, mitotic cell cycle). This suggests the proteins are involved in developmental programs with integrated stress and cell-cycle/apoptotic signaling, rather than a single narrow function, so a label reflecting both development and stress response is appropriate.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006349","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1551997004313844678","title":"DNA Replication and Telomere Maintenance","description":"The proteins show a clear emphasis on DNA replication, DNA repair, and DNA recombination, along with telomere-related processes (telomere capping and telomere localization). A few terms like tRNA aminoacylation and an obsolete GO term, plus floral organ senescence, appear as noise; however, the dominant signal points to genome maintenance and telomere biology.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0080187","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0006430","count":1},{"id":"GO:0006281","count":1}]},{"hash":"302931773485472391","title":"Protein folding, ERAD, and heat-stress response","description":"The GO terms point to proteostasis-related activities: ubiquitin-dependent ERAD, protein refolding, misfolded protein transport, and responses to heat, indicating a cohesive cluster centered on protein quality control under stress. Although DNA replication and axoneme assembly appear, the strongest signals are chaperone- and degradation-related, tying the cluster to folding, refolding, and degradation pathways during heat stress.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0042026","count":4},{"id":"GO:1900035","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0009408","count":4}]},{"hash":"790836932525026508","title":"Actin Cytoskeleton Remodeling and Muscle Development","description":"The cluster is dominated by GO terms related to actin dynamics and muscle biology, including Arp2/3 complex\u2013mediated actin nucleation, mitotic actomyosin contractile ring assembly, and skeletal muscle fiber adaptation and development, suggesting a common theme of cytoskeletal remodeling driving muscle differentiation. Some obsolete terms about DNA/chromatin processes appear but do not define the core function; they may reflect broader chromatin remodeling signals, not central to this cluster\u2019s main signal. Overall, the link between actin remodeling and muscle development provides a coherent, specific theme for this set.","confidence":"Medium","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0043982","count":3},{"id":"GO:0034314","count":3},{"id":"GO:0043981","count":3},{"id":"GO:1904623","count":2}]},{"hash":"1547173820569063517","title":"Translational Machinery and Regulation","description":"The cluster is clearly centered on protein synthesis, with strong GO enrichment for translation, translation initiation, elongation, termination, and translation-coupled mRNA decay, plus selenocysteine incorporation. A few terms like glial proliferation and antibiotic response appear tangential, likely reflecting cellular context or stress signals, but the dominant theme is translation machinery and its control.","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":4},{"id":"GO:0006413","count":3},{"id":"GO:2000767","count":3},{"id":"GO:0000288","count":3}]},{"hash":"2022928911310304064","title":"SNARE-driven vesicle trafficking and synaptic exocytosis","description":"The top GO terms center on SNARE complex assembly and vesicle transport between ER and Golgi, intra-Golgi transport, vesicle fusion with the Golgi, synaptic vesicle exocytosis, and postsynaptic receptor insertion, all pointing to coordinated secretory vesicle trafficking with a strong emphasis on neuronal synapses. Eosinophil degranulation suggests secretory vesicles in other cell types, but the core pattern is vesicle fusion and trafficking linked to synaptic function and Golgi dynamics.","confidence":"Medium","size":9,"edges":14,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0035493","count":3},{"id":"GO:0006891","count":3},{"id":"GO:0098967","count":3},{"id":"GO:0048280","count":3}]},{"hash":"1210236905455090243","title":"Ubiquitin-mediated signaling and cell fate regulation","description":"The GO terms cluster around ubiquitination processes (autoubiquitination, K63-linked ubiquitination, ubiquitin-dependent proteolysis) and key signaling pathways (Wnt, Hippo, JNK), along with outcomes like keratinocyte differentiation and apoptosis, indicating a group of proteins coordinating ubiquitin-driven signaling to control cell growth, differentiation, and death.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":3},{"id":"GO:0051865","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0046328","count":2}]},{"hash":"576157429957571439","title":"Nucleocytoplasmic transport and nuclear pore association","description":"The cluster's top GO terms center on nuclear import/export, localization to the nuclear pore, and mRNA export from the nucleus, with an additional link to vesicle transport; these collectively point to a shared function in nucleocytoplasmic trafficking and nuclear pore dynamics, with a minor ribophagy/defense signal that is less representative. Overall, the proteins appear to participate in transport between the nucleus and cytoplasm and related nuclear pore processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:2000156","count":1},{"id":"GO:0090204","count":1},{"id":"GO:0018298","count":1},{"id":"GO:0042307","count":1}]},{"hash":"1764968812558563255","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":25,"triangles":31,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":5},{"id":"GO:0034476","count":5},{"id":"GO:0034475","count":5},{"id":"GO:0071042","count":5},{"id":"GO:0000467","count":5}]},{"hash":"1601987665661211023","title":"TORC1 signaling and stress-induced translation","description":"The top GO terms cluster around nutrient sensing and translation control: TORC1 signaling and rapamycin response point to the mTOR pathway; amino acid starvation and stress granule localization imply cellular stress adaptation; IRES-dependent translational initiation and RNA processing reflect regulation of gene expression at the translational level. A few terms (glycosylation, cuticle development, meiosis spindle) seem less connected and may be noise, but the dominant theme is TORC1-mediated nutrient signaling and stress-related translation control with RNA processing/stress granule dynamics supporting it.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":1},{"id":"GO:0008363","count":1},{"id":"GO:0097370","count":1},{"id":"GO:1990928","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1572925353519946984","title":"ER Protein Folding and ERAD Quality Control","description":"The terms cluster around endoplasmic reticulum processes: protein folding in the ER, misfolded protein transport, and ER-associated degradation (ERAD), plus post-translational targeting to membranes. This points to ER protein quality control and stress response as the shared theme, with other terms (DNA replication, tRNA import, hormone response) appearing as peripheral noise.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1900035","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0009408","count":1},{"id":"GO:0070843","count":1}]},{"hash":"1264468157308543933","title":"Deubiquitination and ubiquitin-dependent proteolysis","description":"Most of the GO terms are centered on deubiquitination across different linkages (K29, K11, monoubiquitinated deubiquitination) and ubiquitin-dependent protein catabolic processes, plus ERAD-related maintenance. This points to a proteostasis-focused cluster with protein turnover and quality control as the core function, with a few related terms touching necroptosis and development that may reflect broader regulatory roles. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010606","count":1},{"id":"GO:0021551","count":1},{"id":"GO:0035523","count":1},{"id":"GO:0006511","count":1},{"id":"GO:1904378","count":1}]},{"hash":"1684889353187926826","title":"Chromatin Organization and Centromere Maintenance","description":"The cluster\u2019s top GO terms cluster around chromatin state regulation (heterochromatin formation, subtelomeric chromatin, chromosome condensation), centromere-related processes (centromere complex assembly, chromatid cohesion maintenance), and chromatin localization, all pointing to roles in chromatin organization and proper chromosome segregation during cell division. A few terms (e.g., midbrain morphogenesis) appear as outliers, likely annotation noise. Overall, the set reflects chromatin and chromosome maintenance functions.","confidence":"High","size":9,"edges":9,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":1},{"id":"GO:0030466","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0031509","count":1},{"id":"GO:1902340","count":1}]},{"hash":"1274940415342553228","title":"ER Protein Folding & Quality Control","description":"The top GO terms cluster around endoplasmic reticulum\u2013related protein folding and quality control, including protein folding in the ER, ER-associated degradation (ubiquitin-dependent ERAD), and misfolded protein transport, suggesting a shared function in ER protein quality control. Some terms (DNA replication, tRNA import) may be peripheral noise, but the dominant signal supports ER folding and quality-control processes.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1900035","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0009408","count":1},{"id":"GO:0070843","count":1}]},{"hash":"539929447465483864","title":"DNA replication and mitotic spindle regulation","description":"The Top Terms include several core DNA replication processes (DNA replication, leading strand elongation, mitotic DNA replication checkpoint signaling, translesion synthesis) together with microtubule and centrosome/centriole\u2013related regulation (centriole elongation, microtubule depolymerization and severing, mitotic checkpoint). This points to a theme where genome duplication is coordinated with mitotic/spindle machinery. Some vesicle trafficking and autophagy terms appear, but the dominant signal relates to replication and mitotic/cytoskeletal control.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006272","count":3},{"id":"GO:1903724","count":3},{"id":"GO:0070987","count":3}]},{"hash":"33673102285038252","title":"Steroid and Lipid Biosynthesis","description":"The top GO terms cluster around biosynthetic processes for lipids, steroids, retinoids, and pigments (sphingolipid, mycolic acid, retinol/retinoic acid, glucocorticoid, androgen-related, and melanin biosynthesis), suggesting a common theme of lipid/steroid metabolism and pigment synthesis. Some terms relate to drug response, but the dominant signal supports this biosynthetic focus. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030148","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0006710","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042438","count":2}]},{"hash":"2300430070818221400","title":"Unknown","description":"The top GO terms cover a wide range of contexts\u2014from neural development (axonogenesis, Schwann cell development, excitatory postsynaptic potential) and sensory functions (visual perception) to organ development (placenta, thymus, heart) and stress/apoptosis (cadmium response, positive regulation of apoptotic process). This lack of a single, cohesive biological theme suggests the cluster does not represent one unified function or pathway, making a specific, accurate label unlikely. ","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000187","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0048538","count":3},{"id":"GO:0060079","count":3}]},{"hash":"2074422262368118593","title":"Proteostasis and Growth Signaling","description":"Based on the top GO terms, the cluster shows enrichment for regulation of protein degradation via the proteasome, negative regulation of TORC1 signaling, and formation of the cytoplasmic translation initiation complex, all of which relate to protein homeostasis and control of protein synthesis. Additional terms touch on growth-related signaling (PDGF response) and organelle inheritance (Golgi), aligning with cellular growth and division processes. Although there are outliers such as cytosine metabolism and visual learning terms, the core set points to a common theme of proteostasis and growth regulation, hence the label.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:1904262","count":3},{"id":"GO:0001732","count":2},{"id":"GO:0019858","count":2},{"id":"GO:0000320","count":2}]},{"hash":"1036510382567114872","title":"Arginine, amino sugar, and polyamine metabolism","description":"This cluster centers on diverse metabolic processes, notably arginine biosynthesis, glucosamine/N-acetylglucosamine and related amino-sugar metabolism, and polyamine (spermidine/spermine) acetylation and catabolism, with additional signals for mycothiol biosynthesis and other specialized pathways (e.g., melatonin biosynthesis). The shared theme is broad microbial metabolism focused on amino sugars and polyamines, rather than a single unified pathway.","confidence":"Medium","size":9,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":7},{"id":"GO:0032918","count":7},{"id":"GO:0060358","count":7},{"id":"GO:0006044","count":7},{"id":"GO:0010125","count":7}]},{"hash":"1700761634492878312","title":"RNA processing and microtubule dynamics","description":"This cluster shows enrichment for RNA metabolism terms (stress granule disassembly, splicing via spliceosome, spliceosomal assembly) alongside microtubule-related processes (spindle separation, minus-end directed microtubule sliding, axonemal depolymerization) and some DNA metabolism terms. The combination suggests proteins linking RNA processing with cytoskeletal dynamics and cell division, indicating a core theme around RNA processing intertwined with microtubule-associated activities.","confidence":"Medium","size":9,"edges":15,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0000398","count":1},{"id":"GO:0000245","count":1}]},{"hash":"2246922476902011451","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0007283","count":1},{"id":"GO:2000344","count":1},{"id":"GO:0052889","count":1},{"id":"GO:0045493","count":1}]},{"hash":"490449643291584257","title":"Myogenesis and mesenchymal development regulators","description":"These proteins cluster around regulation of muscle and mesenchymal lineages, with GO terms for positive regulation of myoblast differentiation and skeletal muscle fiber development, alongside negative regulation of myoblast proliferation and osteoblast differentiation, plus mesenchyme and heart-field\u2013related development. The shared theme is regulation of myogenesis and mesenchymal tissue development across skeletal, cardiac, and connective contexts.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":7},{"id":"GO:0060766","count":7},{"id":"GO:0048743","count":6},{"id":"GO:0003266","count":6},{"id":"GO:2000818","count":6}]},{"hash":"592333618563039262","title":"Neuronal development and metabolic signaling","description":"Most of the prominent GO terms point to neural development (brain development; neuron projection development). The presence of metabolic signaling terms (glucose mediated signaling; positive regulation of TORC1 signaling) supports a theme of energy-related modulation of neuronal processes. Other terms like ribosomal biogenesis and peroxisome targeting may reflect general cellular housekeeping or annotation noise. Taken together, the cluster is best labeled as neuronal development with metabolic signaling, though the non-neuronal terms suggest some heterogeneity.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0042273","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0010255","count":1},{"id":"GO:0050909","count":1}]},{"hash":"2187057511750179349","title":"Developmental Morphogenesis and Signaling Regulators","description":"This set centers on developmental patterning and morphogenesis across organs (kidney, limb, nervous system, heart) and on growth directionality and cytoskeletal dynamics, with associated signaling pathways (Wnt/EMT). The presence of DNA damage response terms likely reflects cell-cycle control during development. Thus, a label focused on developmental morphogenesis and signaling best captures the cluster.","confidence":"Medium","size":9,"edges":29,"triangles":48,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0072054","count":4},{"id":"GO:0006974","count":4},{"id":"GO:0036023","count":4},{"id":"GO:0051211","count":4},{"id":"GO:0044334","count":4}]},{"hash":"1591442007610533997","title":"Developmental morphogenesis and vascular formation","description":"Several GO terms point to embryonic development and organ formation, especially heart/vasculature. Aortic valve morphogenesis, endocardial cushion formation, and regulation of endothelial cell chemotaxis and sprouting angiogenesis indicate programs governing blood vessel and heart development. Additional terms like liver development, neural plate development, and sclerotome development suggest broader developmental processes. The presence of intracellular sterol transport and negative regulation of cadherin-mediated adhesion could relate to cellular behavior during morphogenesis. Overall, the cluster appears enriched for developmental pathways with a focus on vascular and heart formation, rather than a single biochemical function.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032366","count":1},{"id":"GO:2000048","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0061056","count":1},{"id":"GO:0042688","count":1}]},{"hash":"934024828611914763","title":"Multitissue Development","description":"This cluster centers on development across multiple tissues (eye, cerebellum, skeletal/muscle, motor neurons, putamen, lung), with several terms indicating tissue morphogenesis and neural/muscular development. A few terms seem unrelated (antibiotic biosynthetic process, IL-10 regulation) and may be less representative or noisy, but the dominant theme is cross-tissue developmental processes.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043010","count":3},{"id":"GO:0021549","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0008045","count":3}]},{"hash":"1309685855694833092","title":"Nucleotide metabolism and mitochondrial DNA replication","description":"The GO terms cluster around nucleotide and nucleobase metabolism (CDP/dCDP, cytosine metabolic process) and mitochondrial DNA replication, with a hint of cell-cycle re-entry, suggesting a theme of nucleotide turnover and DNA maintenance. A few unrelated terms (renal system process, visual learning) appear as noise, so confidence is Medium.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015949","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0003014","count":1},{"id":"GO:0006240","count":1},{"id":"GO:1902254","count":1}]},{"hash":"1858651962300921184","title":"Mitochondrial tRNA aminoacylation and translation","description":"The top GO terms point to various mitochondrial tRNA charging activities (Phe, Pro, His, Gly, Thr, etc.) and to translation, with a note on translational fidelity regulation. This suggests a cohesive cluster of proteins involved in mitochondrial tRNA aminoacylation and the mitochondrial protein synthesis machinery, rather than unrelated pathways.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070156","count":1},{"id":"GO:0006433","count":1},{"id":"GO:0006427","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0097056","count":1}]},{"hash":"1208826756449842104","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900101","count":2},{"id":"GO:1904975","count":1},{"id":"GO:0048316","count":1},{"id":"GO:0031627","count":1},{"id":"GO:0009845","count":1}]},{"hash":"2293062811647365596","title":"Neural development and synaptic plasticity","description":"Based on the Top Terms, the majority are related to brain development, neuron projection development, and regulation of synaptic plasticity, with supporting terms for neuron signaling and sensory perception. This points to a cluster of proteins involved in neural development and synaptic function rather than general metabolic processes, justifying a label centered on neural development and plasticity.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0042273","count":1},{"id":"GO:0031175","count":1}]},{"hash":"723879556604252362","title":"mRNA splicing and translation initiation regulation","description":"This cluster combines spliceosome-mediated mRNA processing (cis/splicing, alternative splicing, regulation of splicing) with multiple translation-related terms (initiation, reinitiation, IRES-dependent initiation, preinitiation complex formation, and mRNA stability response). The co-occurrence points to a coordinated role in post-transcriptional gene expression, linking RNA processing to control of translation, including viral-like translation mechanisms.","confidence":"High","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075525","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0006446","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0001731","count":5}]},{"hash":"409670778143141494","title":"Angiogenesis and ECM remodeling","description":"The terms cluster around vascular biology and extracellular matrix remodeling: VEGF production and vascular wound healing point to angiogenesis, while cell-matrix adhesion and heparan sulfate proteoglycan catabolic processes reflect ECM remodeling; PI3K/AKT signaling regulation may support these processes, with some connective-tissue development terms (osteoblast, hair follicle) indicating broader tissue remodeling context.","confidence":"Medium","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":1},{"id":"GO:0033690","count":1},{"id":"GO:0007160","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0051897","count":1}]},{"hash":"969523218036123404","title":"Transmembrane Transporters for Ions and Metabolites","description":"The cluster shows a clear enrichment for various membrane transport activities, including sodium ion transport, nitrite/nitrate and sugar transport (arabinose), phosphate transport, sialic acid transport, xenobiotic transport, and even neurotransmitter loading into synaptic vesicles. This pattern points to a cohesive group of membrane proteins that mediate translocation of diverse ions and small molecules across cellular membranes. Confidence in this label is high because the dominant functional theme is membrane transport across substrates and conditions.","confidence":"High","size":8,"edges":14,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0098700","count":1}]},{"hash":"1487369739492134650","title":"Ubiquitination and immune signaling","description":"Top terms indicate a core theme around ubiquitination (protein autoubiquitination, histone ubiquitination), protein quality control/ERAD (retrograde transport), and immune signaling pathways (C-type lectin receptor signaling, T cell receptor signaling). The overlap suggests a functional cluster of ubiquitination-mediated regulation affecting both immune signaling and cellular stress responses, including DNA repair. Therefore, a concise name capturing these shared functions is \"Ubiquitination and immune signaling\".","confidence":"Medium","size":8,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0090089","count":5},{"id":"GO:1904153","count":5},{"id":"GO:0010390","count":5},{"id":"GO:0071455","count":5}]},{"hash":"189514311412056162","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for translation, ribosome biogenesis, and maturation of SSU-rRNA, with additional support from mitochondrial translation, indicating a cohesive role in ribosome assembly and protein synthesis. A few immune signaling terms are present but much weaker, likely incidental.","confidence":"High","size":8,"edges":18,"triangles":21,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":2},{"id":"GO:1901165","count":1},{"id":"GO:2000510","count":1}]},{"hash":"2118424350176029169","title":"Translation Machinery and RNA Processing","description":"The cluster is dominated by translation-related GO terms (cytoplasmic and mitochondrial translation, overall translation), suggesting a group of proteins involved in protein synthesis. Additional RNA metabolism terms (RISC complex assembly, RNA editing) point to associated RNA processing functions, supporting a cohesive theme around translation and RNA processing.","confidence":"High","size":8,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0046677","count":2},{"id":"GO:0002181","count":1},{"id":"GO:0032543","count":1},{"id":"GO:1990090","count":1}]},{"hash":"436992754081471645","title":"Renal metabolic regulation and water homeostasis","description":"The GO terms cluster around multiple metabolic biosynthetic and catabolic processes (pyruvate, retinol, sorbitol, glutathione, cholesterol) plus renal regulatory functions (regulation of urine volume, renal water homeostasis). This pattern points to a group involved in general metabolism with kidney water balance regulation, supporting the label \"Renal metabolic regulation and water homeostasis.\" The presence of androgen metabolism and smooth muscle proliferation hints at hormonal regulation, but these are secondary to the primary metabolic and renal themes.","confidence":"Medium","size":8,"edges":22,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042866","count":3},{"id":"GO:0035809","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0006061","count":3}]},{"hash":"133257717794022577","title":"Mitochondrial stress response and apoptosis regulation","description":"The cluster includes GO terms tied to mitochondrial membrane lipid handling (phospholipid translocation/transport), assembly of mitochondrial respiratory complexes, and control of cytochrome c release, all pointing to mitochondrial integrity and apoptotic regulation. It also features DNA damage response signaling via p53, linking mitochondrial distress to broader stress pathways, and even pexophagy, which aligns with organelle quality control and lipid metabolism under stress. Together, these terms suggest a cohesive theme of mitochondrial stress response and turnover, including apoptosis signaling.","confidence":"High","size":8,"edges":15,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":1},{"id":"GO:0090201","count":1},{"id":"GO:0033108","count":1},{"id":"GO:2001140","count":1},{"id":"GO:1902166","count":1}]},{"hash":"2192268850860767586","title":"Rho-regulated actin dynamics and cell migration","description":"The proteins in this cluster repeatedly map to actin filament organization and regulation of Rho GTPase signaling, pointing to cytoskeletal remodeling as the core function. This supports cell movement and morphogenesis, consistent with terms like cell migration, actin organization, and GTPase regulation. A few terms touch on related processes such as endocytosis and differentiation, but the dominant theme remains cytoskeletal dynamics driving motility.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":1},{"id":"GO:1903475","count":1},{"id":"GO:1900144","count":1},{"id":"GO:0014839","count":1},{"id":"GO:1990255","count":1}]},{"hash":"1104947922341973194","title":"RNA Pol II Transcription Initiation & PIC Assembly","description":"The top GO terms concentrate on RNA polymerase II\u2013driven transcription initiation, including promoter initiation and preinitiation complex assembly, with snRNA transcription as related activity. Peripheral terms touch on viral transcription, RNA silencing regulation, and telomere-associated processes, but the core signal points to RNA Pol II transcription initiation machinery.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:1901092","count":1},{"id":"GO:0043923","count":1},{"id":"GO:1900370","count":1},{"id":"GO:0051123","count":1}]},{"hash":"585619540461063379","title":"Mitochondrial Complex IV Assembly","description":"The cluster\u2019s top GO term is mitochondrial respiratory chain complex IV assembly, suggesting a common role in assembling cytochrome c oxidase in mitochondria. The interconnections among most members support a cohesive module around this process, even though only one protein is directly annotated to this term.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":1}]},{"hash":"615372842609294816","title":"Membrane Repair and Autophagy","description":"This cluster centers on membrane maintenance and autophagy signals, with plasma membrane repair (GO:0001778) and autophagy (GO:0006914) appearing as the strongest terms. Other GO terms hint at immune defense and developmental processes but are less represented, suggesting a core theme around membrane integrity and autophagic responses rather than a single cohesive developmental or immune pathway. The low maximum degree and minimal clustering support a loosely related set of functions around stress response.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":2},{"id":"GO:0006914","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0043931","count":1},{"id":"GO:0003151","count":1}]},{"hash":"575747476008287884","title":"RNA Methylation & Ribosome Biogenesis","description":"The GO terms show a clear enrichment for ribosome biogenesis and a suite of RNA modification processes (rRNA and tRNA methylation, 7-mmG cap, and related metabolic steps), indicating a cluster focused on RNA maturation and ribosome assembly. Some DNA methylation and histone modification terms appear as background noise, but the dominant signal is RNA-focused. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030488","count":1},{"id":"GO:0070476","count":1},{"id":"GO:0080180","count":1}]},{"hash":"1616271437117474051","title":"Mitotic DNA replication and spindle regulation","description":"This cluster centers on DNA replication-related processes (leading strand elongation, DNA replication, mitotic DNA replication checkpoint signaling) and microtubule dynamics (centrosome/centriole elongation, microtubule depolymerization and severing), suggesting a shared role in coordinating genome duplication with mitotic spindle function. Some trafficking-related terms are present, but the core theme is replication linked to spindle control.","confidence":"Medium","size":8,"edges":14,"triangles":11,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006272","count":1},{"id":"GO:1903724","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0070987","count":1},{"id":"GO:0006888","count":1}]},{"hash":"945580828317762276","title":"Glutamatergic synapse formation and function","description":"Dominant GO terms cluster around excitatory synaptic signaling: excitatory postsynaptic potential, regulation of glutamatergic transmission, dendrite morphogenesis, and maintenance of presynaptic active zone structure, with Rab-mediated signal transduction supporting vesicle trafficking at synapses. While some terms (liver development, immune-related processes) appear as outliers, the overall pattern points to neuronal glutamatergic synapse biology.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0051966","count":3},{"id":"GO:0048790","count":2},{"id":"GO:0048813","count":2}]},{"hash":"1793400735379384763","title":"Chromatin organization and histone modification","description":"The GO terms cluster around chromatin biology: nucleosome assembly, heterochromatin organization, and histone modifications (H3K4 and H3K27 trimethylation), plus establishment of localization to chromatin and related nuclear processes. Despite some obsolete terms, the dominant theme is chromatin structure regulation and epigenetic modulation, with additional signals like heat-shock\u2013related chromatin effects. This suggests proteins in this cluster primarily function in chromatin organization and histone modification.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0080182","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0006334","count":1}]},{"hash":"1436498790391336888","title":"Chaperone-assisted protein folding and unfolded protein response","description":"The cluster is characterized by GO terms for chaperone-dependent protein refolding, chaperone-mediated complex assembly, and response to unfolded protein, with mitochondrial intermembrane space protein import also pointing to chaperone involvement in protein targeting. A few viral assembly terms appear but likely incidental; overall theme centers on protein folding quality control and stress response.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051085","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0019069","count":1}]},{"hash":"2045427217796209478","title":"Zinc ion transport and homeostasis","description":"The top GO terms cluster around zinc ion transmembrane transport, intracellular zinc ion homeostasis, and detoxification of zinc, with some related iron and cadmium transport entries. This indicates a shared function in maintaining zinc ion balance and handling related metal ions, despite some obsolete terms. Therefore, a label focusing on zinc ion transport and homeostasis best represents the cluster.","confidence":"High","size":8,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903874","count":5},{"id":"GO:0055072","count":5},{"id":"GO:0061090","count":5},{"id":"GO:0071584","count":5},{"id":"GO:0006882","count":5}]},{"hash":"1378230678835931799","title":"Sulfur Amino Acid and Energy Metabolism","description":"The top GO terms point to sulfur-containing amino acid pathways (transsulfuration, hydrogen sulfide biosynthesis, cysteine biosynthesis) alongside general energy and carbon metabolism (pyruvate biosynthesis, fatty acid beta-oxidation, valine catabolism) and related processes (phylloquinone and antibiotic biosynthesis, insulin response). This suggests a cluster of metabolic enzymes spanning sulfur amino acid metabolism and broader energy metabolism rather than a single narrow pathway, hence a metabolism-focused label with emphasis on sulfur amino acid processes.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":4},{"id":"GO:0070814","count":4},{"id":"GO:0019346","count":4},{"id":"GO:0019343","count":4},{"id":"GO:0017000","count":3}]},{"hash":"1438875086670764744","title":"DNA Replication and Genome Maintenance","description":"The cluster is enriched for DNA-centric processes: DNA replication, DNA biosynthetic processes, DNA-templated transcription, leading strand elongation, and translesion synthesis, indicating a core role in replication and genome maintenance. A couple of terms related to ER/Golgi transport and autophagy appear less prominently, likely representing secondary annotations or peripheral functions.","confidence":"High","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0090305","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006272","count":2}]},{"hash":"356131966531702351","title":"Glucose-limited morphogenesis and nitrogen transport","description":"The cluster centers on growth form changes in response to glucose limitation (pseudohyphal/invasive growth) and includes several nitrogen-related transport processes (ammonium/methylammonium transport) and nitrogen utilization, suggesting a theme of nutrient-limited adaptation and remodeling of cell behavior. Some terms like bradykinin catabolic process and insulin processing are less aligned and likely reflective of broader or cross-annotated functions, but the dominant signal is nutrient-limited morphogenesis with associated transport. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0015843","count":1},{"id":"GO:0015670","count":1}]},{"hash":"2174186239804456826","title":"DNA replication and centrosome/microtubule regulation","description":"The cluster combines strong signals for DNA replication (leading strand elongation, DNA replication), centrosome/centriole control (positive regulation of centriole elongation, mitotic DNA replication checkpoint signaling), and microtubule dynamics (positive regulation of microtubule depolymerization). This pattern suggests a coordinated program of DNA synthesis with centrosome and spindle regulation during the cell cycle. Additional terms for vesicle trafficking and autophagy/ERAD likely reflect broader proteostasis and quality-control roles in dividing cells, but the core theme remains replication coupled to centrosome/microtubule control.","confidence":"Medium","size":8,"edges":19,"triangles":19,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":7},{"id":"GO:0006272","count":6},{"id":"GO:1903724","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0070987","count":6}]},{"hash":"1675956031736347311","title":"Membrane-targeting and translocation","description":"The cluster is most strongly associated with protein targeting to membranes, notably SRP-dependent cotranslational targeting to membrane and post-translational membrane targeting, suggesting a shared function in directing proteins to membranes. Other terms like DNA replication, bradykinin catabolic process, and various regulatory processes appear less related and may reflect annotation noise or multifunctionar roles. Overall, the membrane targeting/translocation theme is the best cohesive label, albeit with limited supporting breadth.","confidence":"Low","size":8,"edges":11,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0006616","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0090084","count":1}]},{"hash":"661806782537687432","title":"LDL receptor pathway regulation","description":"The cluster shows a convergence on the low-density lipoprotein receptor (LDLR) pathway, with multiple GO terms for LDL particle receptor catabolic processes and its regulation (both positive and negative) and related receptor recycling. While there are a few outlier terms (neuropeptide processing, sporulation), the strongest signal is LDLR trafficking/regulation, suggesting a cohesive theme around LDL receptor control.","confidence":"Medium","size":8,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032804","count":2},{"id":"GO:0002001","count":2},{"id":"GO:0007323","count":2},{"id":"GO:0034230","count":2},{"id":"GO:1905598","count":2}]},{"hash":"1215261480295223606","title":"B cell development and V(D)J recombination","description":"The cluster shows strong signals for immunoglobulin gene rearrangement (V(D)J recombination), pro-B cell differentiation, and isotype switching, all key steps in B cell development. DNA replication/repair terms are present but likely reflect the DNA damage repair context of recombination rather than defining the cluster\u2019s main theme. This makes the B cell maturation and Ig gene rearrangement theme the most representative.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0006297","count":1},{"id":"GO:0000012","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0071897","count":1}]},{"hash":"390347567559460967","title":"Lysosome/vacuole targeting and vesicle trafficking","description":"The GO terms center on targeting to lysosomes, vacuolar transport via MVB sorting, vesicle-mediated transport, and Golgi retention, which together point to intracellular protein sorting and degradation pathways. Some terms appear incidental (sporulation, FGFR signaling), but the dominant signal is lysosomal/vacuolar trafficking and protein turnover.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006622","count":2},{"id":"GO:0050790","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0043328","count":1}]},{"hash":"1977659957214017901","title":"ER protein folding and ERAD quality control","description":"This cluster is driven by GO terms related to endoplasmic reticulum protein folding, misfolded protein transport, ubiquitin-dependent ERAD, and post-translational targeting to membranes, all pointing to ER quality control and protein homeostasis under heat stress. A few terms like DNA replication are potential outliers, but the dominant theme supports ER folding/ERAD functions.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1900035","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0009408","count":4},{"id":"GO:0070843","count":4}]},{"hash":"1091816703779875715","title":"Photoreceptor ciliogenesis and outer segment organization","description":"This cluster is enriched for GO terms linking photoreceptor biology (retinal rod cell development, photoreceptor cell outer segment organization) and cilium assembly, suggesting a retina/cilium-related module. Other terms about mitotic regulation and antiviral responses appear less prominently, indicating a primary photoreceptor/cilium theme with some annotation noise.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":1},{"id":"GO:0007091","count":1},{"id":"GO:0071357","count":1},{"id":"GO:0046548","count":1},{"id":"GO:0061087","count":1}]},{"hash":"973478928992834634","title":"Rho-GTPase-driven cytoskeleton and axon guidance","description":"These proteins cluster around Rho GTPase signaling, actin cytoskeleton regulation, and axon guidance pathways (semaphorin-plexin signaling). The co-occurrence of Rho-mediated signal transduction, regulation of GTPase activity, and semaphorin signaling suggests a cohesive module controlling cytoskeletal dynamics and directed cell movement, including migratory processes like axonogenesis and trophoblast migration.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050771","count":1},{"id":"GO:0071260","count":1},{"id":"GO:1901164","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0032880","count":1}]},{"hash":"1142754280224238460","title":"Ubiquitin-mediated Regulation in Development","description":"The cluster combines post-translational modification processes (protein deubiquitination and protein sumoylation) and regulation of transcription factor activity with diverse developmental roles (pharyngeal system development, cardioblast migration and heart field formation, aortic valve morphogenesis, and GABAergic neuron differentiation), suggesting proteins involved in development governed by ubiquitin/SUMO pathways and transcriptional control.","confidence":"Medium","size":8,"edges":19,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":3},{"id":"GO:0043433","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0090295","count":2}]},{"hash":"1986874172044866480","title":"Cytoskeletal remodeling in muscle and neural development","description":"The cluster's top GO terms cluster around cytoskeletal dynamics and development, including mitotic actomyosin contractile ring assembly, centrosome localization, skeletal muscle fiber development/adaptation, and even long-term synaptic depression, suggesting a shared theme of cytoskeletal remodeling and cell growth shaping both neural and muscle contexts.","confidence":"Medium","size":8,"edges":11,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":2},{"id":"GO:0051660","count":2},{"id":"GO:1904623","count":1},{"id":"GO:1903475","count":1},{"id":"GO:0043503","count":1}]},{"hash":"1769683890418350363","title":"Neural signaling and cytoskeletal dynamics","description":"Top GO terms suggest GTPase/Rho signaling and neural functions (positive regulation of GTPase activity, regulation of Rho signaling, chemical synaptic transmission, social behavior), with supplementary hints from Golgi localization and cytoskeletal-related processes. While some terms are more general, the cluster appears enriched for signaling pathways that influence neural activity and cytoskeletal organization, justifying the label.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0000398","count":1},{"id":"GO:0035176","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0070830","count":1}]},{"hash":"1223744667006697468","title":"Bacterial envelope biosynthesis (LPS & lipoteichoic acid)","description":"The top GO terms are dominated by biosynthetic processes for bacterial envelope components: lipopolysaccharide biosynthesis and core region formation, ADP-L-glycero-beta-D-manno-heptose biosynthesis, and lipoteichoic acid biosynthesis, with supporting fatty acid biosynthesis. This suggests proteins involved in constructing cell envelope lipids and polysaccharides, with some accompanying lipid metabolism terms. The cluster thus reflects envelope biogenesis in bacteria rather than unrelated pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902987","count":3},{"id":"GO:0009103","count":2},{"id":"GO:0009244","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0006633","count":2}]},{"hash":"1099973271912481898","title":"Bacterial lipid and acetyl-CoA metabolism","description":"This cluster centers on fatty acid and lipid biosynthesis (fatty acid biosynthetic process, very long-chain fatty acid metabolic process, lipoteichoic acid biosynthetic process) and acetyl-CoA\u2013related pathways (acetyl-CoA biosynthetic process from acetate, pyruvate fermentation to acetate, amino acid activation for nonribosomal peptide biosynthesis). While several catabolic processes are present (phenylacetate, malonate, homocysteine), the strongest shared theme is metabolism tied to acetyl-CoA and lipid biosynthesis typical of bacterial primary metabolism.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0070814","count":2},{"id":"GO:0043418","count":2},{"id":"GO:0006633","count":1},{"id":"GO:0000038","count":1}]},{"hash":"1724029570471864753","title":"Multi-substrate catabolic metabolism","description":"The top GO terms cluster around catabolic processes for a variety of substrates (triglycerides, glycol, glycerol, L-fucose, 3-chlorocatechol, and other diverse compounds), with an additional note on response to toxic substances. This points to a set of proteins involved in breaking down multiple substrates rather than a single pathway, supporting a label like multi-substrate catabolic metabolism.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0042846","count":1},{"id":"GO:0071271","count":1}]},{"hash":"909736820664974030","title":"Unknown","description":"The Top Terms cover lipid receptor catabolic processes and receptor regulation, hormone and neuropeptide processing, nerve growth factor production, pheromone maturation, and even sporulation\u2014spanning lipid metabolism, neuroendocrine signaling, and developmental processes. There isn\u2019t a single cohesive function tying these terms together, so Unknown with None confidence is appropriate.","confidence":"","size":8,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032804","count":3},{"id":"GO:0002001","count":3},{"id":"GO:0007323","count":3},{"id":"GO:0034230","count":3},{"id":"GO:1905598","count":3}]},{"hash":"463415331612215405","title":"Zinc ion transport and homeostasis","description":"This cluster is dominated by GO terms tied to zinc import across membranes, zinc ion homeostasis, and detoxification, with supporting signals from related metal transport terms. The limb development term appears less central, suggesting zinc handling is the primary theme.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006830","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0006882","count":2},{"id":"GO:0044749","count":2},{"id":"GO:0034224","count":2}]},{"hash":"1839981779271361062","title":"Apoptosis and epithelial morphogenesis regulation","description":"The cluster\u2019s GO terms mainly point to regulation of apoptotic pathways (both intrinsic/extrinsic) and suppression of cytochrome c release, alongside signals related to mammary and salivary gland epithelial morphogenesis (proliferation, duct growth, branching). This suggests a theme of coordinating cell survival with glandular epithelial development, though several terms are more peripheral (MAPK signaling, macrophage chemotaxis, fibrinolysis), so the fit is plausible but not uniformly tight.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901299","count":1},{"id":"GO:1900744","count":1},{"id":"GO:0010758","count":1},{"id":"GO:0051918","count":1},{"id":"GO:0033601","count":1}]},{"hash":"1158382174754806840","title":"Unknown","description":"The listed GO terms cover diverse processes (pain response, fat cell differentiation, palmitoylation, ubiquitination, mechanical-stimulus response, vasopressin secretion, sebaceous gland development, vitamin D response, and telomere regulation) with no clear shared function. With only one edge and no dominant pathway tying the terms together, a single cohesive theme for this cluster cannot be established.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0071260","count":1}]},{"hash":"567024712773476697","title":"Podosome dynamics and GTPase signaling","description":"The top terms point to cytoskeletal remodeling and migratory behavior driven by small GTPases (cell migration, podosome assembly, GTPase signaling, polarity establishment). While some terms relate to mRNA splicing, the dominant theme is actin dynamics and signaling that regulate podosome formation, migration, and epithelial polarity, suggesting a function in cytoskeleton-driven movement. Unknown terms appear to be less connected to the core theme.","confidence":"Medium","size":7,"edges":14,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0007264","count":2}]},{"hash":"1318508259805493570","title":"Ribosome and Translation Machinery","description":"The cluster is dominated by translation-related processes, with two proteins annotated to translation (GO:0006412) and one to ribosomal large subunit assembly (GO:0000027), indicating a core involvement in ribosome function and protein synthesis. The remaining, more diverse terms appear incidental or historical rather than forming a cohesive secondary function. Thus, labeling this cluster as translation/ribosome assembly best captures the primary theme. ","confidence":"Medium","size":7,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000027","count":1},{"id":"GO:1990678","count":1},{"id":"GO:0035358","count":1},{"id":"GO:2000777","count":1}]},{"hash":"60898356274407836","title":"Unknown","description":"The top GO terms are scattered across stress response (response to heat), protein degradation (ubiquitin-dependent catabolic process/ERAD), ribosome biogenesis, development (neuron projection development, gastrulation), signaling (TORC1, glucose-mediated), and sensory biology (taste), with several obsolete terms. With no shared pathway or clear functional theme and no edges linking proteins, there isn\u2019t a coherent cluster function to label beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0009408","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0031175","count":2}]},{"hash":"18484390478205008","title":"Membrane Transporters for Ions and Small Molecules","description":"The top GO terms are dominated by transmembrane transport activities across a range of substrates (nitrate, nitrite, phosphate, arabinose, sialic acid, xenobiotics, sodium ions) and even a related vesicle-loading function for neurotransmitters, indicating a cohesive group of transporter proteins with broad substrate specificity rather than a single-substrate pathway.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0042891","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1833449318126551887","title":"Unknown","description":"The top GO terms span nerve-related maintenance, various metabolic processes, sterol/lipid biosynthesis, and DNA repair, with no single overarching function tying the proteins together. This suggests no coherent, interpretable cluster name can be assigned beyond Unknown.","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":2},{"id":"GO:0006809","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0001949","count":2}]},{"hash":"1750979121846830027","title":"Unknown","description":"There are no top GO terms or functional themes reported for this cluster; the Top Terms field is empty.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"2086949844322878380","title":"Calcium signaling and cellular stress response","description":"The cluster centers on calcium-regulated processes linked to skeletal muscle signaling (positive regulation of calcium release and muscle contraction) while also enriching for detoxification, oxidative stress response, and metabolic pathways (glutathione metabolism, toxin catabolism, starvation response). A secondary DNA repair term is present but less central. Overall, the group seems to reflect a theme of calcium-mediated signaling intertwined with cellular stress and metabolic responses.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0014810","count":4},{"id":"GO:0006289","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0060316","count":4},{"id":"GO:0006749","count":4}]},{"hash":"210028032688139241","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome-related processes (ribosome biogenesis, ribosomal subunit biogenesis, cytoplasmic/translation, and tRNA modification), suggesting the proteins function together in assembling and synthesizing ribosomes and translating mRNA. A few terms about cell cycle/division appear but are less central to the cluster\u2019s core function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090529","count":1},{"id":"GO:0055072","count":1},{"id":"GO:0015684","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0007049","count":1}]},{"hash":"1760574075472610452","title":"Lipopolysaccharide Core Biosynthesis","description":"The cluster shows strong representation for lipopolysaccharide biosynthetic process, particularly ADP-L-glycero-beta-D-manno-heptose biosynthesis, a key precursor for the LPS core in Gram-negative bacteria. Other terms reflect related sugar biosynthesis and broader metabolic activities, suggesting a cohesive group of proteins involved in LPS core assembly with some ancillary functions. High","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0016311","count":3},{"id":"GO:0009097","count":2},{"id":"GO:0031247","count":2},{"id":"GO:0046295","count":2}]},{"hash":"367100121480658042","title":"Mitochondrial Respiratory Chain & ATP Synthesis","description":"The dominance of GO terms related to proton transmembrane transport and mitochondrial respiratory chain complex IV assembly points to mitochondrial energy production as the cluster\u2019s core function. A few RNA processing or gene-silencing terms appear with low support, likely incidental annotations, but do not alter the main theme centered on mitochondrial respiration and ATP synthesis.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0042774","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0045292","count":1},{"id":"GO:0080188","count":1}]},{"hash":"1228335802501194017","title":"Unknown","description":"The GO terms are highly diverse (cell cycle regulation, Toll signaling, immune sensing, endosome-Golgi transport, plant development, and neurotransmitter response) with only singleton counts and no connecting edges, indicating no single cohesive function characterizes the cluster.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":1},{"id":"GO:1903125","count":1},{"id":"GO:0070340","count":1},{"id":"GO:1903215","count":1},{"id":"GO:1905279","count":1}]},{"hash":"2047336643810140124","title":"ER Protein Quality Control","description":"Many top GO terms converge on endoplasmic reticulum functions: protein folding in ER, misfolded protein transport, and ubiquitin-dependent ERAD; plus responses to heat, which stress protein folding. Together they point to cellular mechanisms that ensure proper protein folding and degradation of misfolded proteins in the ER, i.e., ER protein quality control under heat stress. Other terms like DNA replication and tRNA import are less coherent with the main theme and likely noise.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900035","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0009408","count":1},{"id":"GO:0070843","count":1}]},{"hash":"306014673736319494","title":"Mitochondrial dynamics and metabolism","description":"The cluster's GO terms primarily point to regulation of mitochondrial processes: membrane potential, mtDNA replication, cardiolipin metabolism, mitochondrial fusion, and inheritance, suggesting a cohesive group involved in mitochondrial maintenance and dynamics. Some terms about extracellular matrix disassembly or T cell polarity appear less central and likely reflect secondary associations.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0052547","count":1},{"id":"GO:0010918","count":1},{"id":"GO:0022617","count":1},{"id":"GO:1900210","count":1}]},{"hash":"2153331836475506096","title":"Skeletal muscle development and regeneration","description":"The listed GO terms cluster strongly around skeletal muscle biology, including muscle cell differentiation, skeletal muscle tissue regeneration, and striated muscle tissue development, pointing to a cohesive theme of muscle development and regeneration. While other regulatory terms appear (e.g., transcriptional and apoptotic regulation, ubiquitination), the muscle-related terms dominate the functional signal, supporting this label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0034121","count":1},{"id":"GO:0043066","count":1},{"id":"GO:0060544","count":1}]},{"hash":"1548077703391291985","title":"Immune\u2013vascular Regulation","description":"The proteins feature immune-related functions (mast cell immunity, complement activation, engulfment of apoptotic cells) alongside vascular/endothelial signaling (VEGF production/regulation, endothelial cell chemotaxis). This pattern suggests a cluster involved in coordinating inflammatory responses with vascular remodeling and ECM dynamics, rather than a single isolated process.","confidence":"Medium","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043152","count":1},{"id":"GO:1902548","count":1},{"id":"GO:0061743","count":1},{"id":"GO:0051918","count":1},{"id":"GO:0043652","count":1}]},{"hash":"1933468426383185664","title":"DNA replication and embryonic development pathways","description":"This cluster is enriched for DNA replication and cell cycle terms (DNA replication, centrosome cycle, positive regulation of nuclear cell cycle DNA replication) alongside multiple embryonic development/morphogenesis terms (mesoderm formation, embryonic cranial skeleton morphogenesis, hair cell differentiation). The co-occurrence of replication/cycle control with developmental differentiation and patterning suggests proteins coordinating cell proliferation with morphogenesis and lineage specification, with some broadly related terms like transcription initiation and UV protection that may reflect general genome maintenance during development.","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007098","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0071374","count":3}]},{"hash":"2156537790488098151","title":"Stress-Response Signaling and Apoptosis","description":"This cluster centers on signaling cascades triggered by cellular stress and pathways that regulate cell fate, including JNK signaling, NF-kappaB activity, T cell receptor signaling, and intrinsic apoptosis in response to ER stress. The presence of G2/M cell cycle regulation and synapse-related terms suggests some developmental or trafficking connections, but the overall pattern points to a module where stress signals are integrated to control apoptosis and cell fate decisions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0007254","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0000086","count":2}]},{"hash":"1022067431528903048","title":"Embryonic development and patterning","description":"The terms cluster around developmental processes and axis/pattern formation (nose development, hindbrain development, proximal/distal pattern formation, bilateral symmetry, midgut development), with supporting retinol/retinal metabolism that can influence signaling during organogenesis. This suggests a cohesive theme of embryonic patterning and organ development.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":7},{"id":"GO:0042574","count":7},{"id":"GO:0009954","count":6},{"id":"GO:0007584","count":6},{"id":"GO:0043584","count":6}]},{"hash":"1530528789053581042","title":"Lipid and Retinoid Metabolism","description":"This cluster shows several lipid- and retinoid-related processes (retinol metabolic process, fatty acid biosynthetic process, prostaglandin metabolic process), suggesting a shared theme around lipid and vitamin A metabolism. Other terms like xylitol and lignin-related processes appear, but the strongest signal centers on lipid-derived metabolism pathways. Confidence: Medium","confidence":"Medium","size":7,"edges":13,"triangles":11,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042572","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0019518","count":4},{"id":"GO:0006633","count":3},{"id":"GO:0009809","count":3}]},{"hash":"314896023464427662","title":"RNA Polymerase II/III Transcription Initiation","description":"This cluster centers on transcription initiation and open complex formation at promoters, covering both RNA polymerase II and RNA polymerase III systems (including preinitiation complex assembly for Pol III and promoter initiation for Pol II/III). The convergence of terms like transcription initiation at Pol II/Pol III promoters and open complex formation strongly suggests a shared role in transcription initiation machinery, rather than a metabolic or signaling pathway. The lone outlier term (thrombocyte differentiation) is likely noise and does not alter the overall theme.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:0002574","count":1},{"id":"GO:0070898","count":1},{"id":"GO:0006384","count":1},{"id":"GO:1904798","count":1}]},{"hash":"1482606519245272738","title":"Unknown","description":"The top terms are very diverse (jump response, spermatogenesis, ncRNA-mediated silencing, circadian sleep regulation, starvation behavior, and an obsolete RNA hydrolysis term), with no clear single function tying all proteins together. Because a cohesive theme is not evident, a precise label cannot be assigned confidently.","confidence":"","size":7,"edges":12,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007630","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0042595","count":1}]},{"hash":"2051830919775477834","title":"Peptide Hormone Processing and Protease Regulation","description":"The top GO terms point to processing and degradation of peptide hormones (bradykinin catabolic process and insulin processing) and to regulation of proteolysis, suggesting a protease-regulated extracellular/secreted function. The cell adhesion term could reflect associated membrane or ECM interactions common in secreted proteases. Overall, the cluster seems centered on proteolytic processing and control of peptide hormones.","confidence":"High","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0010951","count":1}]},{"hash":"2089525664392452672","title":"Unknown","description":"The listed GO terms span nucleotide metabolism, signaling phosphorylation, various cell cycle phases (mitotic and meiotic), membrane trafficking (caveolin-mediated endocytosis), Golgi inheritance, and even a brain-related function (visual learning), as well as placenta development. There is no single cohesive function uniting these terms, so a specific, representative label cannot be assigned with confidence.","confidence":"","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019858","count":6},{"id":"GO:0015966","count":6},{"id":"GO:0072584","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0008542","count":6}]},{"hash":"610403646035882865","title":"Unknown","description":"Top Terms are empty and the graph has no edges or triangles, so there is no detectable shared function among the proteins. Without functional annotations, the cluster is Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2182583396902000784","title":"Unknown","description":"The terms are highly diverse (blood pressure regulation, cell adhesion, proliferation, vitamin K response, chemokine production, nutrient and metal transport, and fungal morphogenesis) with no apparent shared function, and the cluster has no edges or interactions, so there isn\u2019t a coherent biological theme to name it beyond unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003085","count":2},{"id":"GO:0007155","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0071307","count":1},{"id":"GO:1904209","count":1}]},{"hash":"2060378990230998957","title":"Sodium and Potassium Ion Transport","description":"The top GO terms cluster around transmembrane movement and homeostasis of Na+ and K+ ions, including import/export, gradient establishment, and membrane repolarization, with only a minor signal for muscle contraction; this suggests a core role in ion transport and electrochemical balance.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":1},{"id":"GO:0010107","count":1},{"id":"GO:1990573","count":1},{"id":"GO:0036376","count":1},{"id":"GO:0099132","count":1}]},{"hash":"558581808555169706","title":"Bacterial amino sugar and polyamine metabolism","description":"This cluster centers on the metabolism and biosynthesis of small metabolites common in bacteria: amino-sugars (glucosamine and N-acetylglucosamine), arginine biosynthesis, mycothiol biosynthesis (a thiol redox metabolite in actinobacteria), and polyamines (spermidine/spermine) acetylation and catabolism, plus acetoin breakdown. While melatonin biosynthesis is less typical, the overall pattern points to interconnected pathways for amino-sugar and polyamine metabolism in microbial systems.","confidence":"Medium","size":7,"edges":15,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":5},{"id":"GO:0032918","count":5},{"id":"GO:0060358","count":5},{"id":"GO:0006044","count":5},{"id":"GO:0010125","count":5}]},{"hash":"1476181790687600975","title":"Triglyceride Catabolism and Phospholipid Remodeling","description":"The cluster's frequent GO terms center on triglyceride catabolic processes (mobilization, acyl-chain remodeling) and the catabolism of phospholipids such as phosphatidylcholine and phosphatidylethanolamine, indicating a lipid metabolism module focused on triglyceride turnover and membrane lipid remodeling. A couple of unrelated terms (cell budding, proton motive force-driven ATP synthesis) may reflect broader cellular context, but the lipid-centric terms dominate.","confidence":"High","size":7,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:2000480","count":2},{"id":"GO:0006642","count":2},{"id":"GO:0036153","count":2},{"id":"GO:0034638","count":2}]},{"hash":"1708113140621942251","title":"Renin-Angiotensin\u2013Linked Proteolysis","description":"Top terms indicate a theme of proteolysis (proteolysis; membrane protein proteolysis; protein autoprocessing) coupled with renal regulation (renin-angiotensin\u2013related blood volume control; aldosterone production; mesonephros development). Although a couple terms seem unrelated (xylan catabolic process, systemic acquired resistance), the dominant pattern ties proteolytic activity to kidney/angiotensin signaling. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045493","count":2},{"id":"GO:0002018","count":1},{"id":"GO:0042756","count":1},{"id":"GO:0002016","count":1},{"id":"GO:0009627","count":1}]},{"hash":"1418215816487213677","title":"Unknown","description":"Cannot determine a shared function for this cluster because there are no top GO terms provided and no edges or interactions (Edges: 0, Triangles: 0, Max Degree: 0). With 7 proteins and no functional signal, the cluster cannot be confidently named beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1419036918482043084","title":"Nucleocytoplasmic RNA Transport Machinery","description":"The top GO terms cluster around export and import of RNA and RNA-binding proteins from and into the nucleus (tRNA export, mRNA export, ribosomal subunit export, pre-miRNA export, RNA import, hnRNP import). This points to a shared function in nucleocytoplasmic RNA transport and ribonucleoprotein trafficking. A few unrelated terms (polarity specification, phototaxis, centrosome regulation) appear as outliers; however, the dominant theme supports a RNA transport-focused cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071528","count":1},{"id":"GO:0009944","count":1},{"id":"GO:0006609","count":1},{"id":"GO:0035281","count":1},{"id":"GO:0042331","count":1}]},{"hash":"1605539390507987885","title":"Oxidative stress response","description":"The cluster appears to group proteins involved in redox signaling and defense against oxidative stress, as shown by GO terms for cellular response to hydroperoxide and negative regulation of S-nitrosylation, with an additional (obsolete) term related to preventing oxidative-stress-induced neuron death. This suggests a coherent theme around responding to reactive oxygen species and modulating redox states.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903204","count":1},{"id":"GO:0071447","count":1},{"id":"GO:1902083","count":1}]},{"hash":"1679370897177197747","title":"Ribosome biogenesis and RNA processing","description":"The top GO terms cluster around RNA maturation and ribosome assembly, including 90S preribosome assembly, cis assembly of pre-catalytic spliceosome, and various rRNA and pre-mRNA processing steps, indicating a cohesive role in ribosome biogenesis and RNA processing despite some unrelated terms.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072423","count":1},{"id":"GO:0000464","count":1},{"id":"GO:0006378","count":1},{"id":"GO:1903220","count":1},{"id":"GO:0042868","count":1}]},{"hash":"737786252767826251","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":11,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0030260","count":1},{"id":"GO:0010587","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0039651","count":1}]},{"hash":"2159242793289688198","title":"Nuclear RNA processing and ribosome biogenesis","description":"This cluster is dominated by RNA-centric nuclear processes: post-transcriptional gene silencing, spliceosome-mediated splicing, and preribosome assembly/large subunit biogenesis, with supporting terms for transcription termination and DNA-related nuclear activities. The strongest signal ties to RNA processing and ribosome assembly within the nucleus, justifying a label around these functions.","confidence":"Medium","size":6,"edges":10,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0016441","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0042273","count":2}]},{"hash":"772468337020263960","title":"Leukocyte Migration and Inflammation","description":"The listed GO terms cluster around immune cell movement and inflammatory processes (leukocyte migration, defense response to fungus, negative regulation of IL-8 production, fractalkine production). Additional terms related to extracellular matrix remodeling and vascular changes (elastin catabolic process, smooth muscle migration, fibrinogen regulation, blood pressure regulation) are often associated with inflammatory tissue remodeling. Together, they point to a functional theme of leukocyte trafficking within an inflammatory context.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":1},{"id":"GO:0044537","count":1},{"id":"GO:0009791","count":1},{"id":"GO:0055123","count":1},{"id":"GO:0045415","count":1}]},{"hash":"411762338232479547","title":"Chromatin assembly and chromosome segregation","description":"Primarily chromatin assembly and chromosome segregation: CENP-A chromatin assembly, nucleosome positioning, histone modification, and kinetochore assembly, along with DNA replication. The cluster seems to reflect a chromatin/centromere\u2013mitosis module rather than a single neural or stress response process. A few terms (dendrite morphogenesis, heat acclimation) are present but not central to the core theme.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0048813","count":1},{"id":"GO:0070370","count":1},{"id":"GO:0051567","count":1}]},{"hash":"1642643043966456132","title":"Light-regulated transcription in plants","description":"The cluster combines GO terms for transcriptional regulation (GO:0006355) and red/far-red light phototransduction (GO:0009585), suggesting a link between light perception and transcriptional control in plants. Other terms indicate broader cellular roles (translation, chaperone-mediated assembly, hypoxia sensing, nitric oxide biosynthesis, telomere maintenance), but the strongest cohesive theme is light-driven transcriptional regulation in plant contexts.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0002184","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0009585","count":1},{"id":"GO:0031247","count":1}]},{"hash":"1254782877652329785","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2}]},{"hash":"185304925388096471","title":"Transmembrane Transporters","description":"The GO terms show a clear pattern of transport activities across membranes\u2014carbohydrate, cobalt ion, teichoic acid, phospholipid, ceramide, taurine, monoatomic anions, and methionine transport\u2014plus a fatty acid-related process. This clustering of diverse translocation activities strongly points to membrane transport proteins as the common function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008643","count":1},{"id":"GO:0006824","count":1},{"id":"GO:0015777","count":1},{"id":"GO:0045332","count":1},{"id":"GO:0099040","count":1}]},{"hash":"246820669179667959","title":"Neural signaling and mitochondrial quality control","description":"The presence of neuron-neuron synaptic transmission and learning points to neural functions, while calcium import into mitochondrion, regulation of mitochondrial autophagy, and ROS control indicate mitochondrial quality control. Together, these terms suggest a cluster where neural signaling is linked to mitochondrial maintenance and oxidative stress regulation, with additional developmental signals like cilium assembly and regeneration.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006820","count":2},{"id":"GO:0007270","count":2},{"id":"GO:0030855","count":2},{"id":"GO:0036444","count":2},{"id":"GO:0031101","count":2}]},{"hash":"440336989560844311","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0002047","count":1},{"id":"GO:0008615","count":1},{"id":"GO:0042823","count":1},{"id":"GO:0055114","count":1}]},{"hash":"1159801293690149856","title":"Actin-myosin cytoskeleton remodeling and muscle development","description":"The top terms cluster around actin-mmyosin\u2013driven processes (actomyosin, contractile ring) and skeletal muscle fiber development/adaptation, suggesting a focus on cytoskeletal remodeling and muscle differentiation, with some noise from unrelated processes such as platelet aggregation and chromatin-related activities. This makes a coherent, specific label: actin\u2013myosin cytoskeleton remodeling linked to muscle development.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904623","count":3},{"id":"GO:1903475","count":3},{"id":"GO:0043503","count":3},{"id":"GO:0032508","count":3},{"id":"GO:0042766","count":3}]},{"hash":"1064264315148002931","title":"Type III interferon response","description":"The cluster's only GO term is \"response to type III interferon\" (GO:0034342) with a single protein annotation, suggesting these proteins may participate in IFN-\u03bb signaling. With no reported interactions (Edges: 0), the label reflects the dominant function indicated by GO annotations, but the evidence is limited to a single term, so confidence is low.","confidence":"Low","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034342","count":1}]},{"hash":"872669113728275561","title":"Nuclear transcription and RNA processing","description":"Top terms cluster around spliceosome assembly, transcription termination, promoter selection regulation, and chromatin-related processes, indicating a shared focus on nuclear gene expression. Some terms (endocytosis, extracellular transport, development) are outliers, but the core signal supports the nuclear RNA processing/transcription theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0006858","count":1},{"id":"GO:0001178","count":1},{"id":"GO:0006369","count":1}]},{"hash":"1338234054095802285","title":"Mitochondrial Complex II Assembly","description":"GO:0034553 points to the assembly of the mitochondrial respiratory chain complex II, suggesting the proteins share a common role in assembling the succinate dehydrogenase complex II in mitochondria. The cluster thus appears best described by this specific assembly function.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":1}]},{"hash":"1120634025366482498","title":"Unknown","description":"This cluster has a mix of plant cell wall biosynthesis and signaling terms along with animal embryonic development and signaling terms, with no shared function evident and no edges linking proteins. There is no clear unifying biological process among the terms, so the label Unknown is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":1},{"id":"GO:0010256","count":1},{"id":"GO:0009969","count":1},{"id":"GO:0009863","count":1},{"id":"GO:0008101","count":1}]},{"hash":"950271316812084935","title":"Th2 cytokine signaling and immune regulation","description":"The GO terms clustered here emphasize regulation of cytokine production (IL-8, IL-10, IL-13) and positive regulation of T-helper 2 differentiation, plus signaling pathways like the ERK5 cascade. This suggests a core function in modulating Th2-type immune responses and cytokine environments. Some terms about cell polarity and embryonic epithelium polarity appear, but the dominant theme remains immune signaling and Th2 differentiation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045630","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0045415","count":1},{"id":"GO:2000769","count":1},{"id":"GO:0070375","count":1}]},{"hash":"1413122105135226409","title":"Unknown","description":"The GO terms span lipid metabolism, transcription termination, meiosis, calcium/NFAT signaling, drug and metal ion responses, nucleotide biosynthesis, and chromatin regulation, with no clear single pathway or function tying them together, so a cohesive, intuitive label isn\u2019t evident.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006685","count":6},{"id":"GO:0030847","count":6},{"id":"GO:0051321","count":6},{"id":"GO:0033173","count":6},{"id":"GO:0042220","count":6}]},{"hash":"548526925833144105","title":"Nuclear mRNA Processing and Export","description":"Based on GO terms, the strongest cohesive signal is RNA-related: nuclear mRNA surveillance, post-transcriptional tethering of RNA Pol II genes at the nuclear periphery, and mRNA export from the nucleus. Other terms (developmental and metabolic) appear incidental with low counts, so the core theme is nuclear RNA processing and export.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071033","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0001889","count":1},{"id":"GO:0009791","count":1}]},{"hash":"1233016551512047269","title":"RNA processing and translation regulation","description":"The top GO terms cluster around RNA metabolism (rRNA maturation, snRNP/spliceosome assembly, mRNA decay) and protein synthesis (cytoplasmic translation), with additional signals of post-translational regulation (protein ubiquitination) and cellular stress responses. This points to a group of proteins involved in RNA processing and regulation of gene expression at the translation level, rather than a single, narrow pathway. Confidence: Medium","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0097403","count":1},{"id":"GO:0000387","count":1},{"id":"GO:0002181","count":1}]},{"hash":"1077540444685738492","title":"Mitochondrial transport and membrane dynamics","description":"The terms point strongly to mitochondrial function: multiple transport roles (ADP, Mn, Fe, PLP), membrane dynamics (membrane fission, membrane potential regulation), and oxidative stress response (superoxide). While liver regeneration appears as a weaker outlier, the core theme is mitochondria-focused transport and membrane maintenance. ","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":3},{"id":"GO:0090149","count":3},{"id":"GO:0097421","count":3},{"id":"GO:0015866","count":2},{"id":"GO:0061179","count":2}]},{"hash":"468968953976430568","title":"Diverse metabolite biosynthesis","description":"The Top Terms are dominated by various biosynthetic processes across primary and secondary metabolites (porphyrin/heme precursor, biotin, chlorophyll, fatty acids, proline, ornithine, antibiotic biosynthesis), suggesting a cluster of proteins involved in multiple biosynthetic pathways. A couple of terms relate to signaling and dephosphorylation, but the overarching theme appears to be synthesis of diverse metabolites.","confidence":"Medium","size":6,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0042759","count":2},{"id":"GO:0006470","count":1}]},{"hash":"21210048385576665","title":"Chromatin organization and transcription regulation","description":"This cluster is defined by GO terms centered on chromatin organization (including heterochromatin formation), DNA-templated transcription and RNA polymerase II activity, plus DNA replication-dependent chromatin assembly and DNA repair, suggesting proteins involved in chromatin structure maintenance and transcription regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":1},{"id":"GO:0070869","count":1},{"id":"GO:0006261","count":1},{"id":"GO:0030466","count":1},{"id":"GO:0006368","count":1}]},{"hash":"2141970105002638067","title":"GTPase-driven cytoskeletal and mitochondrial dynamics","description":"This cluster centers on small GTPase-mediated signaling and cytoskeletal remodeling (filopodium assembly, regulation of cell spreading), with mitochondrial fission as a closely related dynamic process. While there are additional terms related to development and neural signaling, the dominant themes tie to GTPase control of cytoskeleton and organelle dynamics. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0000266","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0051932","count":3},{"id":"GO:0045792","count":3}]},{"hash":"129678389212415044","title":"Microtubule dynamics and motor-driven transport","description":"The cluster is dominated by GO terms related to microtubule behavior (depolymerization, spindle pole separation) and motor-driven transport along microtubules (anterograde transport, minus-end sliding), plus actomyosin ring assembly in cytokinesis. This suggests a cohesive function centered on cytoskeletal dynamics and intracellular transport, with some ancillary signaling/development context.","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":3},{"id":"GO:0098971","count":2},{"id":"GO:0000073","count":2},{"id":"GO:0031534","count":2},{"id":"GO:0060404","count":2}]},{"hash":"1548166579934751035","title":"LPS and Lipid A Biosynthesis","description":"The top GO terms are dominated by lipopolysaccharide biosynthetic processes, including lipid A biosynthesis and UDP-N-acetylglucosamine biosynthesis, suggesting the proteins mainly participate in bacterial outer-m membrane carbohydrate assembly. A few terms related to DNA replication and vesicular transport appear, likely as annotation noise in a small cluster, but the strongest signal centers on LPS/lipid A production. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0006048","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009245","count":2}]},{"hash":"551969461356982733","title":"Nucleolar transcription and ribosome biogenesis","description":"The top GO terms cluster around nucleolar and nuclear activities: ribosome biogenesis; transcription of rRNA by RNA polymerase I and tRNA/RNA by Pol III; nucleologenesis; and ncRNA-related heterochromatin formation. While developmental terms like megagametogenesis and embryo implantation appear, the dominant signal is nucleolar transcription and ribosome assembly, suggesting these proteins function together in ribosome production and nucleolar maintenance.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045793","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0009561","count":1},{"id":"GO:0031048","count":1},{"id":"GO:0007566","count":1}]},{"hash":"628890760523776494","title":"Neural Development and Synaptic Plasticity","description":"This cluster is dominated by GO terms related to neural development (brain development, neuron projection development) and synaptic plasticity (positive regulation of synaptic plasticity), suggesting a core theme of neural growth and signaling. Other terms touch on metabolic signaling and general cellular processes (glucose signaling, TORC1 signaling, ribosome biogenesis, intraflagellar transport), which may be supportive or context-specific rather than defining the main function. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0010255","count":2},{"id":"GO:0050909","count":2}]},{"hash":"919263707694307457","title":"Unknown","description":"No GO terms or network connections tie these proteins to a common function (Edges: 0, Triangles: 0, Top Terms: none). With no shared terms or interactions to guide a label, the cluster cannot be assigned a meaningful function.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1947809381949893569","title":"Arabinan and cell wall polysaccharide biosynthesis","description":"This cluster is enriched for arabinan biosynthesis, cell wall polysaccharide formation, and cell wall organization, pointing to a plant cell wall biosynthesis module. Other terms (alkaloid metabolism, cytokinin catabolism, lactate/methanol turnover) are broader plant metabolic processes and may reflect annotation noise, but the dominant theme is arabinan and cell wall polysaccharide biosynthesis.","confidence":"Medium","size":6,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009820","count":4},{"id":"GO:0070592","count":4},{"id":"GO:0035884","count":4},{"id":"GO:1903457","count":4},{"id":"GO:0009823","count":4}]},{"hash":"1875655713914917850","title":"Renal Osmoregulation and Metabolic Pathways","description":"The cluster shows signals for kidney-related osmoregulation (regulation of urine volume, renal water homeostasis) alongside various metabolic processes (glutathione and retinol metabolism, sorbitol biosynthesis, androgen metabolism). While some terms are obsolete, the presence of renal water balance terms suggests a kidney-focused functional theme anchored by metabolic activities.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019551","count":2},{"id":"GO:0033512","count":2},{"id":"GO:0035809","count":1},{"id":"GO:0042572","count":1},{"id":"GO:0006061","count":1}]},{"hash":"1636305289905915934","title":"Chromosome segregation and mitotic spindle components","description":"The top GO terms point to centromeric chromatin assembly (CENP-A), cell division, and microtubule severing, which together indicate roles in chromosome segregation and spindle dynamics during mitosis. While there are also terms for RNA splicing and ER-Golgi transport present, the strongest signals are tied to mitotic chromosome handling and spindle function. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006888","count":2}]},{"hash":"454247672672326843","title":"Diverse metabolic processes","description":"The top GO terms cover metabolism of multiple substrates (retinol, fatty acids, xylitol, furaldehyde, prostaglandins) and related biosynthetic/catabolic processes, with a few immune or stress-response terms (lipopolysaccharide response, antineoplastic agent response). The lack of a single dominant pathway across the six proteins suggests a broad, heterogeneous metabolic cluster rather than a specific pathway. Therefore, Diverse Metabolic Processes is the best, concise label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042572","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0009809","count":1},{"id":"GO:0033859","count":1}]},{"hash":"827836564088521936","title":"Metal ion transport and calcium homeostasis","description":"The top GO terms are dominated by metal ion transport (zinc, copper, cadmium) and intracellular calcium ion homeostasis, suggesting the cluster is centered on ion transport and metal/homeostatic functions. Some lipid and carbohydrate metabolism terms appear but are less consistent with the main signal. Overall, a metal ion transport/homeostasis label best captures the core theme. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":1},{"id":"GO:0046839","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0071577","count":1}]},{"hash":"333605552574000320","title":"Immune Receptor Signaling and Ubiquitination","description":"The GO terms point to signaling initiated by multiple immune receptors (T cell receptor, Fc-epsilon receptor, and C-type lectin receptor pathways) and regulation by ubiquitination (deubiquitination), with supporting hints from TNF signaling and antiviral/viral processes. While some metal ion response terms appear, the dominant pattern is immune signaling combined with ubiquitin-mediated regulation, forming a cohesive cluster around immune response modulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":3},{"id":"GO:0016032","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0046686","count":2},{"id":"GO:0038095","count":2}]},{"hash":"174657535352100575","title":"DNA replication, repair, and recombination","description":"This cluster is rich in GO terms related to DNA replication, double-strand break repair, homologous recombination, and recombinase assembly, plus responses to DNA-damaging conditions such as gamma radiation and toxic substances, indicating a cohesive DNA maintenance and repair module.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1990414","count":3},{"id":"GO:0071480","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0032508","count":2},{"id":"GO:1904631","count":2}]},{"hash":"490315987174592666","title":"Embryonic neural and skeletal morphogenesis","description":"The enriched GO terms point to development of neural tissues (neural plate, dorsal root ganglion, midbrain dopaminergic neurons) alongside craniofacial/skeletal formation (cranial skeletal system, limb joint morphogenesis). Additional terms highlight embryonic cell-cycle regulation and actin-cytoskeleton/cell-adhesion remodeling, all of which are central to morphogenesis. Together, they suggest proteins function in coordinated embryonic neural and skeletal development, possibly involving neural crest\u2013driven processes.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":4},{"id":"GO:0036023","count":3},{"id":"GO:1990791","count":3},{"id":"GO:1904888","count":3},{"id":"GO:0001840","count":3}]},{"hash":"1717335166807170812","title":"Immune and synaptic signaling regulators","description":"The Top Terms include immune signaling pathways (interleukin-1 signaling, interleukin-12 production/signaling, T cell receptor signaling) alongside neural communication terms (GABAergic and chemical synaptic transmission), plus general regulatory processes like phosphorylation. This pattern suggests proteins that modulate signaling across both immune and neural contexts rather than a single pathway, justifying a cross-system signaling regulator label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032228","count":1},{"id":"GO:2000560","count":1},{"id":"GO:0070498","count":1},{"id":"GO:0033135","count":1},{"id":"GO:0007268","count":1}]},{"hash":"1509592364456573181","title":"Keratinocyte differentiation and hair follicle morphogenesis","description":"The cluster\u2019s GO terms converge on skin/epidermal biology: hair follicle morphogenesis, keratinocyte differentiation and proliferation, and keratinocyte envelope cross-linking via transglutaminase, plus cell envelope organization. This points to a coordinated keratinization/epidermal development program with supportive signaling context (e.g., GPCR\u2013PLC pathways). Overall, the proteins appear to function together in skin formation and hair follicle biology.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":1},{"id":"GO:0048661","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0007200","count":1},{"id":"GO:0043277","count":1}]},{"hash":"1619684633423580789","title":"Cell signaling regulators","description":"Among the top GO terms, there is broad emphasis on regulation or activation of signaling pathways (guanylate cyclase, calcineurin-NFAT, peptide-threonine phosphorylation, cAMP signaling), plus related processes like astrocyte activation and complement regulation. A few terms (microtubule nucleation, myofibril assembly) touch other cellular aspects but can reflect signaling-dependent cytoskeletal reorganization. Overall, the cluster appears to collect proteins that modulate signaling cascades rather than a single, cohesive pathway, supporting a label of cell signaling regulators.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031284","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0010800","count":1},{"id":"GO:0048143","count":1},{"id":"GO:0045917","count":1}]},{"hash":"1440134466943717108","title":"Chromatin silencing and RNA Pol II transcription regulation","description":"The terms emphasize transcription elongation control, promoter start-site regulation, and mRNA export, along with heterochromatin formation and histone modification. This points to a cluster of proteins coordinating transcription with chromatin state and silencing mechanisms.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":1},{"id":"GO:0006368","count":1},{"id":"GO:0043618","count":1},{"id":"GO:0010793","count":1},{"id":"GO:0032968","count":1}]},{"hash":"53344901410861411","title":"Ribosome biogenesis and translation regulation","description":"Most terms cluster around the core machinery of protein synthesis and ribosome assembly, including translation, initiation, mitochondrial translation termination, SSU rRNA maturation, and large subunit biogenesis, with both positive and negative regulation of translation. A couple of outlier terms (osteoblast differentiation and UV-related DNA damage response) are present but do not define the primary theme. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:1901194","count":2},{"id":"GO:0070126","count":1},{"id":"GO:0006413","count":1},{"id":"GO:0000462","count":1}]},{"hash":"37415629443019741","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome-related processes\u2014translation (GO:0006412), ribosome biogenesis and small subunit assembly, and nucleolus organization\u2014indicating a cluster focused on ribosome biogenesis and protein synthesis. A few terms like Notch signaling, brain segmentation, and inflammatory response occur at low frequency, likely incidental.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0060265","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0007219","count":1},{"id":"GO:0006407","count":1}]},{"hash":"1308767008870129256","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms related to ribosome production and function\u2014ribosome biogenesis, small subunit assembly, SSU rRNA maturation, and translation. These themes indicate a group of proteins involved in assembling and translating ribosomes, with a few transcription-related terms likely reflecting multifunctionality or annotation noise.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1900153","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0042274","count":1}]},{"hash":"1893903697027650866","title":"Spliceosome assembly and mRNA splicing","description":"This cluster is strongly centered on RNA processing, especially splicing, with multiple GO terms for mRNA splicing via the spliceosome, spliceosomal snRNP and complex assembly, and related nuclear trafficking. The presence of terms like import into nucleus and P-body assembly reinforces a role in post-transcriptional RNA processing within the nucleus, supporting a coherent spliceosome/splicing label.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0033962","count":5},{"id":"GO:0006369","count":5},{"id":"GO:0009737","count":5},{"id":"GO:0030490","count":5}]},{"hash":"362950175330241494","title":"Nitrate Transport and Plant Hormone Signaling","description":"The cluster\u2019s terms center on nitrate response, nitrate transmembrane transport, and nitrate assimilation, complemented by dipeptide/oligopeptide transport and hormone-related processes (auxin signaling and gibberellin homeostasis), plus herbicide response. This pattern suggests a module coordinating nutrient uptake/usage with hormone-regulated signaling in plants, with a touch of stress response.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010167","count":1},{"id":"GO:0035672","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0042938","count":1},{"id":"GO:0009635","count":1}]},{"hash":"545414706617672511","title":"Embryonic development and tissue differentiation","description":"The GO terms cluster around developmental processes across multiple tissues\u2014endocrine system development, placental/trophoblast differentiation, cartilage morphogenesis, left-right pattern formation, and EMT-related heart development, plus pancreas development\u2014indicating a broad theme of embryogenesis and tissue differentiation. A couple of RNA splicing and mRNA decay terms appear but are minor compared to the developmental signals. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060536","count":2}]},{"hash":"2228763242107357325","title":"Vesicle trafficking and lysosome regulation","description":"Based on GO terms, the cluster centers on control of vesicle movement through secretory and endolysosomal pathways (ER-to-Golgi transport, late endosome to lysosome transport, lysosomal membrane organization) and related processes like exocytosis and ubiquitination. While some apoptotic or polarity terms appear, they likely reflect broader cellular contexts in immune and epithelial cells. Overall, the common theme is regulation of vesicle trafficking with lysosomal involvement.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071803","count":3},{"id":"GO:1902953","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0097212","count":3}]},{"hash":"2148559081847080286","title":"DNA Damage Repair and Stress Response","description":"The cluster is enriched for DNA-damage related terms (SOS response, DNA unwinding, nucleotide-excision repair, UV protection) and stress-related processes (response to heat, nonsense-mediated decay) with a few outliers (MDA-5 signaling, hair cell differentiation), indicating a core theme of DNA repair and cellular stress signaling.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0006268","count":3},{"id":"GO:0009408","count":2},{"id":"GO:0006367","count":2}]},{"hash":"1452672623604558765","title":"Glycogen Metabolism and Glycophagy","description":"The top GO terms cluster around glycogen biosynthesis, glycogen catabolic regulation, and glycophagy, with an additional link to cellular response to sucrose. This points to a coherent theme of glycogen turnover and carbohydrate sensing/response, rather than unrelated processes. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061723","count":1},{"id":"GO:0071329","count":1},{"id":"GO:0045819","count":1},{"id":"GO:0005978","count":1}]},{"hash":"202288542768993898","title":"Multisystem Developmental Signaling","description":"The cluster centers on development across multiple tissues (nervous system, skeletal system, heart) and includes signaling processes (Rho protein signaling) as well as calcium ion-dependent exocytosis regulation, suggesting a cohesive theme of developmental programs governed by signaling pathways. A few terms (pseudohyphal growth, cytosine metabolism, visual learning, mitotic re-entry) appear more peripheral, possibly reflecting broader or noisy associations in the data.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0045956","count":3}]},{"hash":"1097416280300154368","title":"Rho-GTPase signaling and cytokinesis regulation","description":"The top GO terms cluster around regulation of cytokinesis, positive regulation of GTPase activity, and regulation of Rho protein signaling, indicating a core theme of Rho-GTPase\u2013driven signaling controlling cytokinesis and cytoskeletal dynamics. Additional terms related to dephosphorylation and transcription regulation suggest broader regulatory roles in signaling and gene expression, while differentiation terms (lung epithelial, neuron) and morphine response appear as peripheral associations. Overall, the strongest shared function points to Rho-GTPase\u2013mediated signaling linked to cytokinesis control. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032465","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0060487","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0030182","count":2}]},{"hash":"484875004278003828","title":"LDL receptor trafficking regulation","description":"The top GO terms point to regulation of LDL receptor\u2013related catabolic processes and receptor recycling, indicating a common theme around LDL receptor trafficking and turnover. A few terms (peptide pheromone maturation, enkephalin processing, nerve growth factor production) appear unrelated to LDL receptor biology, suggesting some annotation noise, but the shared focus on LDL receptor catabolic regulation and recycling supports this label.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032804","count":1},{"id":"GO:0002001","count":1},{"id":"GO:0007323","count":1},{"id":"GO:0034230","count":1},{"id":"GO:1905598","count":1}]},{"hash":"1682666373776785183","title":"Unknown","description":"The GO terms associated with this cluster span immune signaling (TLR pathways, detection of LPS, chemokine signaling), cellular stress and chemical responses (chloroquine response, thioredoxin peroxidase regulation), endosome-to-Golgi transport, and even developmental terms from plants and kidneys. There isn\u2019t a coherent, single biological theme linking these functions, and the cluster has no observed edges, suggesting a heterogeneous or random grouping rather than a shared function. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903125","count":1},{"id":"GO:0010596","count":1},{"id":"GO:1905279","count":1},{"id":"GO:1902350","count":1},{"id":"GO:0072224","count":1}]},{"hash":"1451345141157611446","title":"Actin Cytoskeleton and Muscle Development","description":"This cluster is dominated by GO terms related to actin-based structures and muscle formation, including cardiac myofibril assembly, actin cortical patch assembly, and skeletal muscle fiber development, as well as cell polarity that governs cell shape. While there are a few terms less clearly connected (organelle inheritance and brain region development), the strongest signal centers on actin organization and muscle differentiation, suggesting a cohesive theme around actin cytoskeleton functions in muscle contexts.","confidence":"High","size":5,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055003","count":2},{"id":"GO:0000011","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0071963","count":2}]},{"hash":"215895129331603100","title":"DNA Replication and Cell Cycle Regulation","description":"The cluster's top GO terms emphasize DNA synthesis (leading strand elongation, DNA replication) and checkpoint signaling, indicating core involvement in replication and cell-cycle control. Centriole elongation and microtubule regulation terms suggest coordination with centrosome dynamics and mitotic spindle machinery, while other trafficking terms appear ancillary. Overall, the dominant theme is replication-related processes tied to cell cycle progression.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006272","count":3},{"id":"GO:1903724","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0070987","count":3},{"id":"GO:0006888","count":3}]},{"hash":"625170993669629930","title":"Membrane Targeting & Unfolded Protein Response","description":"The cluster\u2019s GO terms repeatedly point to SRP-dependent and post-translational targeting of proteins to membranes, suggesting roles in directing nascent polypeptides to the membrane. Also prominent are terms related to the unfolded protein response and protein refolding, indicating a shared involvement in protein quality control under stress. A few outlier terms (DNA replication, karyogamy) are present but do not define the core function.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006616","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1254856423188106608","title":"Nuclear transcription and genome maintenance","description":"The cluster centers on nuclear functions, including transcription initiation/termination (RNA Pol I/II), transcription-coupled DNA repair, telomere maintenance, DNA replication control, and the centrosome cycle, with a few linked roles in genome protection. Together these terms point to coordinated regulation of gene expression and genome integrity in the nucleus.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006363","count":3},{"id":"GO:0000722","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0006367","count":2}]},{"hash":"736914441401093361","title":"Neural Development and Signaling","description":"Based on the GO terms, the cluster is driven by neural-related processes: neuron projection development, sensory perception of taste, and positive regulation of synaptic plasticity, with intraciliary transport linked to sensory neuron function. There is also metabolic signaling (glucose-mediated signaling and TORC1 regulation) that can influence neural growth and activity, alongside broad cellular processes like ribosome biogenesis and mitotic cell cycle that underpin development. This combination suggests a theme around neural development coupled with metabolic signaling and growth. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0010255","count":1},{"id":"GO:0050909","count":1},{"id":"GO:0035185","count":1}]},{"hash":"524507256693658068","title":"Nucleolar RNA transcription and ribosome biogenesis","description":"A set dominated by RNA transcription activities across RNA polymerases I, II, and III (nucleolar rRNA transcription, tRNA transcription, RNA-templated transcription) and ribosome biogenesis, with a note of nucleolar localization regulation. These together point to a nucleolus-focused role in RNA synthesis and ribosome assembly, despite a few outlier terms in the list.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019985","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0001172","count":1},{"id":"GO:1904750","count":1},{"id":"GO:0042797","count":1}]},{"hash":"109238545696360290","title":"Developmental morphogenesis and cell adhesion proteins","description":"These proteins are linked to tissue development and structural organization, with GO terms highlighting palatal shelf morphogenesis, multicellular organism development, ventral spinal cord development, and integrin-mediated cell adhesion, as well as related processes like hematopoietic stem cell migration. While there are a couple of metabolism-related terms (lipopolysaccharide and allantoin biosynthesis) that are less consistent with a vertebrate developmental theme, the dominant signal points to developmental morphogenesis and cell\u2013cell adhesion functions. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990134","count":2},{"id":"GO:0033631","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0046677","count":2}]},{"hash":"743805112610804367","title":"Unknown","description":"The GO terms span protein ubiquitination, histone modification (obsolete), various transport and DNA repair regulations, hyperoxia response, and immune signaling pathways, with no single dominant function or cohesive biological process connecting all terms. This diversity makes a specific, representative label unreliable.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0090089","count":5},{"id":"GO:1904153","count":5},{"id":"GO:0010390","count":5},{"id":"GO:0071455","count":5}]},{"hash":"1427942367310508751","title":"Vesicle trafficking and lipid metabolism","description":"This cluster predominantly features GO terms for endosomal transport and dense-core granule exocytosis, pointing to vesicle trafficking and secretion. Coupled with fatty acid beta-oxidation and sterol biosynthesis, the proteins may connect lipid metabolism with trafficking pathways. A few development-related terms appear but are less prominent; overall, the theme is secretory/trafficking processes linked to lipid metabolism.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032000","count":2},{"id":"GO:1990504","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0007281","count":1},{"id":"GO:0060709","count":1}]},{"hash":"1059388604742312366","title":"Unknown","description":"The GO terms are highly diverse (cell adhesion, miRNA metabolism/silencing, dopamine receptor signaling, stem cell proliferation, keratinocyte development, pollen sperm differentiation, semaphorin-plexin signaling, and cardiac membrane repolarization) with no clear shared function or pathway linking the proteins. With zero edges and only single-term associations, there isn\u2019t a cohesive theme to name; thus Unknown with None confidence.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":1},{"id":"GO:0010586","count":1},{"id":"GO:0007195","count":1},{"id":"GO:0072089","count":1},{"id":"GO:0003334","count":1}]},{"hash":"441151440824075666","title":"Methylation and lipid biosynthesis","description":"This cluster shows multiple methylation-related GO terms (N-terminal serine trimethylation, arginine methylation, RNA G(guanine-N7)-methylation) alongside several lipid biosynthesis processes (ubiquinone, sterol, phosphatidylcholine). The co-occurrence suggests proteins with roles in methylation and lipid metabolism, though the diverse terms and lack of interactions imply a loosely connected set rather than a single, cohesive function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035573","count":1},{"id":"GO:0006744","count":1},{"id":"GO:0001887","count":1},{"id":"GO:1901052","count":1},{"id":"GO:0016126","count":1}]},{"hash":"208048369114216475","title":"Potassium transport and membrane potential regulation","description":"The top GO terms point to potassium ion transmembrane transport, stabilization and regulation of resting membrane potential, and membrane repolarization, all suggesting ion-channel\u2013driven control of membrane potential. The mechanosensation term also aligns with ion-channel\u2013mediated sensing, reinforcing a cohesive theme around membrane potential homeostasis and ion transport, with a few membrane-context lipid biosynthesis terms that may reflect membrane composition rather than core function.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":1},{"id":"GO:0050976","count":1},{"id":"GO:0030322","count":1},{"id":"GO:0060075","count":1},{"id":"GO:0071805","count":1}]},{"hash":"1161546188583208644","title":"Unknown","description":"The top GO terms are highly diverse (pain response, adipogenesis, ubiquitination, mechanosensory response, vasopressin secretion, vitamin D response, telomere regulation, mRNA stability, spindle assembly). There is no clear common function tying these terms together for this cluster, so a single, meaningful label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0030103","count":2}]},{"hash":"1290426069010435485","title":"Bacterial cell wall remodeling and growth","description":"This cluster is driven by GO terms tied to peptidoglycan biosynthesis and turnover, cell wall organization, and regulation of cell shape, with additional signals for cell division. Together, these indicate a coherent theme of bacterial cell wall maintenance and growth, even though a few metabolic terms appear among the top terms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0009254","count":1},{"id":"GO:0030245","count":1},{"id":"GO:0071555","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1583661378987728603","title":"Unknown","description":"The terms in this cluster are highly diverse, spanning positive regulation of guanylate cyclase and NFAT signaling, astrocyte and complement activation, fungal prospore membrane formation, microtubule nucleation, and cardiac myofibril assembly, with several obsolete terms. There is no clear, coherent biological theme connecting these functions, so a single representative label cannot be confidently assigned.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031284","count":1},{"id":"GO:0032120","count":1},{"id":"GO:0010800","count":1},{"id":"GO:0048143","count":1},{"id":"GO:0045917","count":1}]},{"hash":"1420572252887217039","title":"Transcription Regulation and Stress Response","description":"These proteins are enriched for DNA-templated transcription, suggesting a nuclear regulatory role. They also show associations with various cellular stress responses (hypoxia, diamide, unfolded protein, cadmium), pointing to transcription factors or regulators that respond to stress. The obsolete GO terms reduce precision, but the overall pattern links transcriptional control to stress-activated pathways; with no observed interactions, this cluster may reflect a set of transcription-associated proteins responsive to cellular stress.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0033169","count":1},{"id":"GO:1900365","count":1},{"id":"GO:1990910","count":1},{"id":"GO:0072738","count":1}]},{"hash":"1252763612330109342","title":"Nuclear DNA replication and RNA processing","description":"Dominant signals include DNA replication, mitotic cell cycle, cell division, and ribosome biogenesis, along with RNA processing and splicing. While a couple terms hint at neural signaling or cold response, the core theme is nuclear processes tied to cell growth and gene expression, suggesting a cell-cycle/ RNA-processing module.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090394","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0051291","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1844341272923491988","title":"TGF-\u03b2/BMP signaling regulation and dephosphorylation","description":"This cluster is dominated by GO terms related to signaling pathway regulation and dephosphorylation, including negative regulation of TGF-\u03b2 receptor signaling and BMP signaling, cellular response to TGF-\u03b2, and peptidyl-threonine/protein dephosphorylation. While there is some unrelated specificity (e.g., germ-line masculinization), the common thread appears to be modulation of signaling pathways via dephosphorylation, especially TGF-\u03b2/BMP signaling, with a smaller tie to broader cellular regulation such as NF-\u03baB and vacuole dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":1},{"id":"GO:0000173","count":1},{"id":"GO:0042006","count":1},{"id":"GO:0042347","count":1},{"id":"GO:0035970","count":1}]},{"hash":"1793756017732722475","title":"Broad Substrate Membrane Transporters","description":"This cluster shows multiple transmembrane transport activities across diverse substrates, including ions (sodium, nitrate/nitrite, phosphate), organic compounds (sialic acid, 4-hydroxyphenylacetate), xenobiotics, and neurotransmitter loading into synaptic vesicles, indicating a shared function as membrane transport proteins with broad substrate scope.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0015739","count":2}]},{"hash":"642372872989977064","title":"Ribosome biogenesis and translation with stress response","description":"Top GO terms indicate ribosome production and protein synthesis, with translation and ribosome biogenesis at the core. Additional terms reflect cellular stress responses to antibiotics and transcriptional inhibitors, alongside translational fidelity maintenance, suggesting a cluster centered on ribosome function and translation regulation under stress. High","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006407","count":1},{"id":"GO:0045903","count":1}]},{"hash":"1159408028505616386","title":"Translation and mRNA decay regulation","description":"This cluster is dominated by GO terms related to protein synthesis and its control\u2014translation, initiation, elongation, termination, and positive regulation of cytoplasmic translation\u2014as well as deadenylation-dependent decay of mRNA, pointing to coordinated regulation of translation and mRNA stability. Some terms (mitotic sister chromatid cohesion, glial cell proliferation, and obsolete RNA polymerase II import) are less directly connected, but the strongest signal centers on translational processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006413","count":1},{"id":"GO:2000767","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0007064","count":1},{"id":"GO:0044376","count":1}]},{"hash":"1255127981927871952","title":"Ubiquitin-Dependent Degradation and Trafficking","description":"The top terms cluster around ubiquitination, ERAD, and localization/trafficking related to nuclear pore and membrane processes, plus related cell cycle and transport roles; this points to a theme of ubiquitin-mediated protein quality control and trafficking.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:0090204","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0097237","count":4},{"id":"GO:0031117","count":4}]},{"hash":"1150264619299434099","title":"Aminoacyl-tRNA Synthetases (tRNA charging)","description":"The terms show multiple aminoacyl-tRNA synthetase activities (prolyl-, glycyl-, seryl-, threonyl-tRNA aminoacylation) and related translation processes (translation, regulation of translational fidelity, mitochondrial variants, and selenocysteinyl-tRNA biosynthesis), indicating a cluster of enzymes responsible for charging tRNAs and supporting protein synthesis.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006433","count":1},{"id":"GO:0015966","count":1},{"id":"GO:0097056","count":1},{"id":"GO:0070150","count":1},{"id":"GO:0006450","count":1}]},{"hash":"120133587271650698","title":"Golgi-ER vesicle trafficking and synaptic receptor localization","description":"The terms cluster around ER-to-Golgi and intra-Golgi transport, SNARE complex assembly, vesicle fusion, and exocytic insertion of neurotransmitter receptors to the postsynaptic membrane, as well as Golgi organization and receptor localization to synapses. This pattern suggests a functional grouping in vesicular trafficking between the ER and Golgi and targeted delivery of receptors to synapses, with relevance to synaptic plasticity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0035493","count":2},{"id":"GO:0006891","count":2},{"id":"GO:0098967","count":2},{"id":"GO:0048280","count":2}]},{"hash":"39057684347733661","title":"Actin Cytoskeleton Remodeling and Cell Morphogenesis","description":"This cluster is dominated by GO terms tied to actin filament dynamics (depolymerization, severing, and cytoskeleton organization) and processes like cell polarity and morphogenesis, indicating a common function in actin-driven cell shape changes and organization. While a few terms are peripheral (e.g., photoreceptor guidance, adenylate cyclase regulation), the core theme is actin remodeling related to morphogenesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031138","count":1},{"id":"GO:0045761","count":1},{"id":"GO:0072499","count":1},{"id":"GO:0030042","count":1},{"id":"GO:0033298","count":1}]},{"hash":"1702057044482341412","title":"Unknown","description":"No GO terms or interactions are provided to link these four proteins, and the Top Terms section is empty with zero edges/triangles. Without functional annotations to reveal a shared function, there is no basis for a descriptive cluster label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1175512901130116438","title":"Cell signaling and actin dynamics","description":"The GO terms cluster around diverse signaling pathways (PDGF receptor signaling, Rho signaling, angiotensin signaling, T cell receptor signaling) together with cytoskeletal remodeling (actin nucleation) and membrane trafficking (caveolin-mediated endocytosis) and JUN phosphorylation. This points to a shared theme of signaling cascades that regulate the cytoskeleton and endocytosis, affecting processes like development and heart-related signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0072584","count":1},{"id":"GO:0036120","count":1},{"id":"GO:0086098","count":1}]},{"hash":"744111596899368295","title":"Unknown","description":"There are no GO terms provided for this cluster, and with only basic network connectivity (5 edges, 2 triangles) among 4 proteins, there is no evident common function to assign. Therefore the cluster is labeled Unknown to reflect lack of identifiable shared function.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"1577750303218307977","title":"Cell Polarity and Morphogenesis","description":"The top GO terms cluster around establishing and maintaining cell polarity and related morphogenetic processes, including dendrite morphogenesis, presynaptic active zone maintenance, and mitotic spindle assembly. Rab signaling supports polarity and vesicle trafficking, while hemocyte migration and budding cell growth reflect polarity-driven movement and development. Some terms touch on tissue-specific development (liver) or immune signaling (T cell activation), but the dominant theme ties to cell shape, organization, and morphogenesis.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0071963","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0001889","count":3},{"id":"GO:0048790","count":3},{"id":"GO:0048813","count":3}]},{"hash":"856942249213931754","title":"Redox Homeostasis and Antioxidant Defense","description":"The top terms cluster around oxidative stress management: removal of superoxide radicals, cellular redox homeostasis, oxidative detoxification, and response to hydrogen peroxide. While a few unrelated developmental terms appear, the dominant signal is maintenance of redox balance and detoxification of oxidants, suggesting these proteins share an antioxidant function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0019430","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0045793","count":2}]},{"hash":"971190983591481892","title":"Organelle inheritance and actin-based trafficking","description":"This cluster centers on inheritance of vacuoles and mitochondria, actin patch assembly, and establishment of cell polarity with polarized trafficking (to mating projections, secretory granules, raft domains) and spindle orientation, reflecting a cohesive role in organelle inheritance and cytoskeletal transport.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0071963","count":4},{"id":"GO:1904601","count":2}]},{"hash":"568530584462783374","title":"Unknown","description":"The GO terms are scattered across unrelated processes (pain response, adipogenesis, ubiquitination, mechanosensory response, vasopressin secretion, vitamin D response, mRNA stability regulation, etc.), with no single shared pathway or function binding the proteins. As such, a specific, cohesive label is not supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0030103","count":1}]},{"hash":"1548093896511315853","title":"Bacterial cell wall and envelope glycan biosynthesis","description":"This cluster centers on biosynthetic processes for cell wall components and surface polysaccharides, including lipopolysaccharide, peptidoglycan, slime layer glycans, and nucleotide-sugar donors (UDP-GlcNAc, GDP-mannose), indicating a cohesive theme of envelope glycan construction.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009298","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0009089","count":3},{"id":"GO:0009245","count":3}]},{"hash":"87660296783975860","title":"Peptide Processing and Maturation","description":"The cluster\u2019s top GO terms point to proteolytic processing of peptides and dibasic protein processing (e.g., enkephalin processing), indicating a shared function in maturation of peptide hormones and secreted proteins. While other terms touch on receptor recycling and developmental processes, the strongest and most cohesive signal is peptide/protein processing, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032804","count":2},{"id":"GO:0034230","count":2},{"id":"GO:0032802","count":2},{"id":"GO:0090472","count":2},{"id":"GO:0007354","count":2}]},{"hash":"124952402638615497","title":"Nuclear RNA processing and ribosome biogenesis","description":"The top GO terms point to RNA metabolism actions (post-transcriptional silencing, spliceosome regulation, ncRNA-mediated silencing) together with ribosome biogenesis (preribosome assembly and large subunit biogenesis) and some chromatin-related roles, suggesting a nucleus-centered cluster coordinating RNA processing with ribosome production and chromatin dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016441","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0016569","count":1},{"id":"GO:1902626","count":1}]},{"hash":"315396634057372988","title":"Lipid Biosynthesis","description":"The strongest signals are biosynthetic processes for lipids and related molecules (ubiquinone, sterols, and phosphatidylcholine), suggesting the cluster centers on lipid biosynthesis and membrane lipid production. Some RNA methylation and ribosome-related terms appear among the terms, which could reflect broader metabolic or annotation context, but the lipid biosynthesis cluster is the clearest common theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":2},{"id":"GO:0016126","count":2},{"id":"GO:1901052","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0019919","count":2}]},{"hash":"2290401118225025199","title":"Ribosome biogenesis and RNA processing","description":"The cluster centers on preribosome assembly and large subunit biogenesis, indicating ribosome maturation, with supportive RNA-processing terms such as spliceosome-regulated mRNA processing and post-transcriptional gene silencing, suggesting a broader RNA metabolism theme.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016441","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0042273","count":1},{"id":"GO:1904574","count":1},{"id":"GO:0048701","count":1}]},{"hash":"1815826150198430053","title":"Ion transport and homeostasis","description":"Dominated by GO terms related to ion transport and homeostasis (potassium and calcium ions; zinc transport), suggesting a membrane-associated ion regulation function. Other terms are present but less cohesive, so the core theme is ion balance.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010107","count":3},{"id":"GO:0046839","count":3},{"id":"GO:1903416","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0071577","count":3}]},{"hash":"763801009898375082","title":"Ribosome Biogenesis and Nucleolar Assembly","description":"This cluster is dominated by ribosome biogenesis terms (ribosomal large subunit biogenesis, ribosome biogenesis, assembly of large subunit preribosome), pointing to a core role in ribosome production and nucleolar maturation. The presence of DNA replication and viral genome replication terms suggests a link to cell-cycle\u2013related or replication-stress contexts that often accompany high ribosome biogenesis activity, while minor RNA processing terms may reflect overlapping transcriptional machinery. Overall, the central theme is ribosome assembly with ancillary replication-related associations.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0042254","count":2}]},{"hash":"345419158831946772","title":"Beta-lactamase Regulation and Antibiotic Response","description":"GO terms indicate antibiotic-related functions, including regulation of beta-lactamase activity, beta-lactam antibiotic catabolic process, and response to antibiotic, suggesting a focus on antibiotic resistance pathways and enzyme regulation. Some terms relate to protein folding and complex formation, implying supporting structural roles, but these do not define a distinct alternative theme. Overall, the strongest shared signal is antibiotic response and beta-lactamase regulation.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051259","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0019876","count":1}]},{"hash":"611315507101294517","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning amino acid metabolism (arginine/urea cycle), tRNA modification, chromatin assembly, DNA replication/repair, and a shear-stress response, with no clear single function tying all four proteins together. Therefore there is no representative theme to label the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":1},{"id":"GO:0008616","count":1},{"id":"GO:0071499","count":1},{"id":"GO:0000050","count":1},{"id":"GO:0000052","count":1}]},{"hash":"2289363659530294212","title":"Methionine cycle and one-carbon metabolism","description":"The top GO terms include L-methionine cycle and S-adenosylmethionine biosynthesis, as well as one-carbon metabolic processes, indicating a core theme around methyl group transfer and one-carbon metabolism. Additional terms point to related amino acid turnover and related biosynthetic/catabolic processes, suggesting a metabolic cluster centered on amino acid metabolism and methylation pathways. Occasional terms like liver development and response to starvation likely reflect broader metabolic regulation and tissue context rather than separate functions. Confidence: High","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0046951","count":2},{"id":"GO:0042594","count":2},{"id":"GO:0006730","count":1}]},{"hash":"460650590391342552","title":"Lipid and carbohydrate biosynthesis","description":"Most of the GO terms point to biosynthetic and metabolic processes for lipids and carbohydrates (glycolipid, phospholipid, glycogen, GPI anchor biosynthesis, glucose metabolism, and mycothiol biosynthesis), with a few sugar-response terms embedded. The cluster lacks a single cohesive function due to the mix of biosynthesis and broad response terms, but the dominant theme is lipid and carbohydrate biogenesis. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009247","count":1},{"id":"GO:0008654","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0007631","count":1},{"id":"GO:0009744","count":1}]},{"hash":"295325149869977786","title":"Prostaglandin Synthesis and Inflammatory Regulation","description":"The cluster centers on GO terms for prostaglandin biosynthesis and the cyclooxygenase pathway, together with negative regulation of inflammatory mediators like IL-1\u03b2 and MCP-1, suggesting a shared function in prostaglandin-driven inflammatory signaling and its modulation. While some terms (e.g., CNS development, amino acid/ethanol responses) are broader, the prostaglandin-related terms provide the clearest common theme.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":2},{"id":"GO:0019371","count":1},{"id":"GO:0045471","count":1},{"id":"GO:0060316","count":1},{"id":"GO:0071638","count":1}]},{"hash":"1512272221791620344","title":"ER stress response and ubiquitin-mediated trafficking","description":"The cluster\u2019s top GO terms include response to unfolded protein and ER-to-Golgi vesicle-mediated transport, plus ubiquitination processes (protein autoubiquitination, K6-linked). This points to a module centered on ER protein quality control and regulation of vesicular trafficking via ubiquitin signaling. Additional stress-related terms (response to corticosterone, cellular response to toxic substance) suggest broader stress adaptation, but the core shared function appears to be ER-associated protein turnover and transport.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051412","count":1},{"id":"GO:0036205","count":1}]},{"hash":"1372487243622226764","title":"Unknown","description":"The top GO terms are diverse: glucosylceramide catabolic process, glycoside catabolic process, and bile acid metabolic process hint at lipid/glycoside metabolism, while the one term for CNS neuron development does not align with the others. With no interactions and only scattered annotations, there isn\u2019t a single coherent function to define this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006680","count":1},{"id":"GO:0008206","count":1},{"id":"GO:0016139","count":1},{"id":"GO:0021954","count":1}]},{"hash":"2257429952558542756","title":"Unknown","description":"There are four proteins but no GO terms or shared functional signals reported, so there is no clear common function to label. Without evidence of a shared role, I cannot infer a representative function for this cluster.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[]},{"hash":"13645533513115967","title":"Endosomal\u2013Vacuolar Trafficking and Recycling","description":"This cluster centers on vesicle-mediated transport within the endomembrane system, including vacuolar transport, endosome-to-Golgi traffic, the CVT pathway to the vacuole, and endocytic recycling, as well as phagosome-lysosome fusion. These cohesive terms point to a shared function in cargo routing among endosomes, Golgi, and vacuoles with autophagy-related aspects, despite some species-specific annotations that are more peripheral. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":1},{"id":"GO:0007034","count":1},{"id":"GO:0032120","count":1},{"id":"GO:2000769","count":1},{"id":"GO:0034498","count":1}]},{"hash":"2135848176797285244","title":"Developmental patterning and organogenesis","description":"This cluster\u2019s top GO terms are dominated by developmental and patterning processes (proximal/distal pattern formation, bilateral symmetry, nose/hindbrain/midgut development), suggesting roles in tissue patterning and organogenesis across multiple organs. Metabolic terms appear less representative, so the primary theme is developmental organization. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009954","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0043584","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0009855","count":3}]},{"hash":"1682210220377178999","title":"Fungal sterol and sphingolipid metabolism","description":"The top GO terms point to ergosterol biosynthesis regulation and sphingolipid metabolism (e.g., MIPC metabolic process) and fatty acid biosynthesis, suggesting a theme of fungal membrane lipid homeostasis. Some terms appear unrelated or cross-kingdom, indicating annotation noise, but the core signals consistently indicate lipid and sterol metabolism in fungi.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":3},{"id":"GO:0006809","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006675","count":3},{"id":"GO:0001949","count":3}]},{"hash":"1400244755287984991","title":"Vacuolar amino acid transport","description":"The GO terms point to transmembrane import/export of amino acids from the vacuole (histidine, arginine, serine, tyrosine, lysine, glutamine), suggesting a shared role in vacuolar amino acid transport. A single unrelated term (root cap development) appears, but the dominant signal is membrane transport of amino acids.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048829","count":1},{"id":"GO:0089708","count":1},{"id":"GO:1990818","count":1},{"id":"GO:0051365","count":1},{"id":"GO:2000487","count":1}]},{"hash":"2031063396737207760","title":"RNA processing and ribosome biogenesis","description":"The top GO terms point to RNA-level processes, including post-transcriptional gene silencing, regulation of mRNA splicing via the spliceosome, and assembly/biogenesis of the large ribosomal subunit. Together these indicate a core theme around RNA processing and ribosome production, with some additional but less central terms (e.g., DNA replication, morphogenesis) present. This makes the label representative and specific to the dominant functions in the cluster.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016441","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0042273","count":2},{"id":"GO:1904574","count":2},{"id":"GO:0070417","count":2}]},{"hash":"104366694655592344","title":"Unknown","description":"The terms span ribosome assembly, plant shoot development, cell adhesion structures, endocytosis, and growth factor signaling, with several terms from different kingdoms and an obsolete GO. There is no single shared process evident across the three proteins, and the subgraph has no edges, so no coherent cluster function is apparent. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006407","count":1},{"id":"GO:0034198","count":1},{"id":"GO:0090506","count":1},{"id":"GO:2000032","count":1},{"id":"GO:0000028","count":1}]},{"hash":"312741645948631543","title":"Phyllo-/menaquinone biosynthesis","description":"The top GO terms include phylloquinone biosynthetic process and menaquinone biosynthetic process, suggesting quinone biosynthesis as a core function of this cluster. While other terms point to antibiotic biosynthesis and various catabolic pathways, the strongest and most specific signal is quinone production, which likely ties the proteins together. Confidence in this label is Medium.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0010124","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0006635","count":3}]},{"hash":"1533354274667121193","title":"Nuclear transport and RNA export","description":"The GO terms cluster around movement of macromolecules across the nuclear envelope (tRNA export, mRNA export, ribosomal subunit export) and import into the nucleus, plus nuclear pore organization and periphery tethering events; together they strongly indicate a cohesive function in nuclear transport and RNA processing/localization.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006409","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0000973","count":1},{"id":"GO:0034398","count":1},{"id":"GO:0036228","count":1}]},{"hash":"675278303688228652","title":"Ciliary motility and microtubule-based transport","description":"The GO terms show a cohesive theme around cilium movement, dynein arm/flagellar assembly, and intraciliary and general microtubule-based transport (including spindle localization and nuclear migration). Left-right symmetry establishment and ventricle development also tie to nodal cilia signaling in development, supporting a cilia/microtubule transport\u2013centered cluster. Some terms like P-body assembly are less directly linked but do not overpower the core ciliary/transport signals.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033962","count":1},{"id":"GO:0021670","count":1},{"id":"GO:0072382","count":1},{"id":"GO:1990048","count":1},{"id":"GO:0007368","count":1}]},{"hash":"1342186153823493911","title":"Growth signaling and transcription in development","description":"Most GO terms point to growth and tissue development (RNA Pol II\u2013driven transcription, IGF response, hepatocyte proliferation, wound healing, morphogenesis). A common theme is growth-regulated transcription coordinating development and regeneration.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0035470","count":2},{"id":"GO:0072574","count":1},{"id":"GO:1990418","count":1},{"id":"GO:1904765","count":1}]},{"hash":"1265425811817919404","title":"Cajal body RNA localization","description":"The top GO terms center on scaRNA and telomerase RNA localization to the Cajal body, suggesting a shared role in RNA trafficking/processing within this nuclear suborganelle. While there are other unrelated terms present (e.g., protein refolding, heat response), the strongest signal is RNA localization to Cajal bodies, supporting a function in RNA maturation or assembly in these nuclear bodies.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042026","count":3},{"id":"GO:1904874","count":3},{"id":"GO:0090666","count":3},{"id":"GO:0046686","count":3},{"id":"GO:0019068","count":3}]},{"hash":"622880687250544731","title":"Microtubule Transport and Dynamics","description":"Top GO terms point to microtubule-based transport (anterograde dendritic transport) and MT dynamics (minus-end sliding, cytoplasmic/axonemal depolymerization), plus MT-associated events like spindle pole separation and karyogamy. Some terms relate to development or actin, but the dominant theme is cytoskeletal transport and remodeling driven by microtubules.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098971","count":3},{"id":"GO:0000073","count":3},{"id":"GO:0031534","count":3},{"id":"GO:0060404","count":3},{"id":"GO:0072092","count":3}]},{"hash":"1906854692759896095","title":"Immune NF-\u03baB/NFAT signaling and germinal center development","description":"The GO terms cluster around immune signaling pathways (non-canonical NF-\u03baB signaling and calcineurin-NFAT signaling) and lymphoid tissue processes (spleen development, germinal center formation), with accompanying regulation of miRNA and immune-related transcriptional control, suggesting a cohesive immune/germinal center function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038061","count":2},{"id":"GO:0048536","count":1},{"id":"GO:1902895","count":1},{"id":"GO:1900127","count":1},{"id":"GO:0002467","count":1}]},{"hash":"241848897574296932","title":"Chromatin remodeling and transcription regulation","description":"The cluster shows strong representation of chromatin-related terms: nucleosome mobilization/positioning, pericentric heterochromatin formation, histone ubiquitination, and regulation of transcription start site selection, plus DNA damage tolerance and cohesion/centromere-associated processes. While a couple terms (e.g., olfactory development) are less connected, the dominant theme centers on chromatin dynamics and transcription control, consistent with a module involved in genome organization and regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904908","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0007131","count":2},{"id":"GO:0021553","count":2},{"id":"GO:0006301","count":2}]},{"hash":"2131707451927952876","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic process and autoubiquitination, suggesting members function in tagging substrates for proteasomal degradation. Also present are nuclear RNA processing/chromatin-related terms, which may reflect coordinated turnover of ribosomal or transcription-associated components, but the central signal is ubiquitin-mediated proteolysis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":1},{"id":"GO:2000203","count":1},{"id":"GO:0060044","count":1},{"id":"GO:0048260","count":1}]},{"hash":"1439270871581254711","title":"Unknown","description":"The three proteins show a mix of GO terms spanning chromatin organization, collagen catabolic/proteolysis, ion transport, glycoside response, and even obsolete annotations, with no clear, shared function or pathway. This lack of a cohesive theme makes it hard to assign a specific, representative label beyond Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035551","count":2},{"id":"GO:0034724","count":2},{"id":"GO:0034396","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0003094","count":1}]},{"hash":"1180194926504022205","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0007283","count":1},{"id":"GO:2000344","count":1},{"id":"GO:0052889","count":1},{"id":"GO:0045493","count":1}]},{"hash":"1394542695140074934","title":"Neuronal development and morphogenesis","description":"Several terms point to neural morphology and signaling, such as dendrite morphogenesis and establishment or maintenance of bipolar cell polarity regulating cell shape, as well as visual learning and JUN phosphorylation. Growth factor signaling (PDGF response) and Golgi inheritance may accompany neural differentiation and cellular remodeling. While there are some unrelated terms (cytosine metabolic process, cell cycle re-entry), the cluster collectively aligns with neural development and structural maturation rather than a single metabolic pathway. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019858","count":1},{"id":"GO:0000320","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0070926","count":1},{"id":"GO:0036120","count":1}]},{"hash":"1797760832530970377","title":"Unknown","description":"The top GO terms span several unrelated areas (innate immune signaling via RIG-I, ubiquitin-dependent ERAD, transcription initiation and regulation by RNA Pol II, mitotic spindle disassembly, and telomerase activity regulation), providing no single cohesive function or pathway for the cluster. This suggests the proteins do not share a common, interpretable biological role based on the given terms, so a specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039536","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0032147","count":1},{"id":"GO:0006369","count":1},{"id":"GO:0001113","count":1}]},{"hash":"588726485567261829","title":"Cell Wall and Carbohydrate Biosynthesis","description":"Based on the GO terms, the proteins share a link to biosynthesis of cell wall components and other carbohydrate structures (fungal-type cell wall biogenesis, cell wall organization, lipopolysaccharide biosynthesis, GDP-mannose, glycogen, lactose biosynthesis), suggesting a cluster of carbohydrate- and cell-wall\u2013related biosynthesis functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019877","count":1},{"id":"GO:0009298","count":1},{"id":"GO:0009272","count":1},{"id":"GO:0005989","count":1},{"id":"GO:0009103","count":1}]},{"hash":"668411938134617649","title":"Unknown","description":"The terms are spread across ribosome biogenesis, neural development, signaling, and sensory processes with no dominant shared function, and there are no edges to suggest a cohesive interaction; this makes it unclear what specific functional theme defines the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":1},{"id":"GO:0031175","count":1},{"id":"GO:0010255","count":1},{"id":"GO:0050909","count":1},{"id":"GO:0031276","count":1}]},{"hash":"1079675847759864066","title":"Unknown","description":"The GO terms span diverse areas: tRNA modification (wobble uridine thiolation, seleno-modification), transsulfuration, molybdopterin cofactor biosynthesis, and cell redox homeostasis, plus protein urmylation. Simultaneously, there are unrelated development terms (epithelial differentiation, spinal cord development) and a yeast-specific morphology term (pseudohyphal growth) and a mitotic M phase term. This combination does not point to a single coherent function or pathway for the cluster, so a concise, representative label cannot be assigned with confidence.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000220","count":1},{"id":"GO:0030855","count":1},{"id":"GO:0070329","count":1},{"id":"GO:0002143","count":1},{"id":"GO:0019346","count":1}]},{"hash":"2220417440541943731","title":"Folate metabolism and thymidylate synthesis","description":"Proteins in this cluster cluster around folate- and one-carbon metabolism, with GO terms for tetrahydrofolate and tetrahydrobiopterin biosynthesis, dTMP/thymidylate biosynthesis, and related drug responses (methotrexate, antibiotics). This suggests a cohesive theme of folate-driven nucleotide synthesis and associated regulatory or stress responses.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":1},{"id":"GO:0046105","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0046655","count":1},{"id":"GO:0051000","count":1}]},{"hash":"1481786652772511360","title":"Unknown","description":"This cluster has no GO terms listed to define a shared function, and with only a small number of proteins and minimal connectivity, there isn\u2019t a clear common theme to label it meaningfully.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1473689284165495793","title":"Unknown","description":"The Top Terms show a broad mix: cellular response to amino acid stimulus, TOR signaling, GTPase/Rho regulation, exocytosis, and various developmental processes (germ cell development, midbrain morphogenesis, placental differentiation). With zero edges and no clear shared biological function across the proteins, there isn't a coherent theme to label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":1},{"id":"GO:0032008","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0000186","count":1},{"id":"GO:1990504","count":1}]},{"hash":"828974736536755369","title":"Unknown","description":"There are no edges or GO terms indicating a shared function among the proteins, so no coherent theme or label can be inferred from the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]}]