[{"hash":"984251697758120373","title":"RNA Splicing Regulation and Translation Initiation","description":"The top GO terms converge on post-transcriptional RNA processing and control of translation, including regulatory ncRNA-mediated gene silencing, positive/negative regulation of spliceosome-mediated splicing (and alternative splicing), mRNA export, and components of translation initiation/reinitiation (eIF4F complex assembly, IRES-dependent initiation, translation reinitiation). The presence of viral translation terms also fits a broader RNA regulatory theme, suggesting a cluster centered on RNA processing and translation control.","confidence":"High","size":29,"edges":289,"triangles":1678,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":27},{"id":"GO:0048026","count":27},{"id":"GO:0097010","count":25},{"id":"GO:0075525","count":25},{"id":"GO:0048025","count":25}]},{"hash":"114011469970611713","title":"mRNA processing and translation control","description":"This cluster centers on post-transcriptional regulation of gene expression, spanning splicing (spliceosome), mRNA export, stability during stress, and both initiation/termination/reinitiation of translation, including IRES-dependent translation and miRNA-mediated silencing.","confidence":"High","size":29,"edges":53,"triangles":21,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":10},{"id":"GO:0048025","count":9},{"id":"GO:0097010","count":8},{"id":"GO:0075525","count":8},{"id":"GO:0000380","count":8}]},{"hash":"2170301712078953926","title":"Ubiquitin-dependent antiviral and TNF signaling","description":"The top GO terms point to ubiquitin-dependent protein catabolic processes and autoubiquitination, coupled with innate immune responses, defense against virus, and TNF-mediated signaling (including JNK regulation). This suggests a cluster of proteins primarily involved in ubiquitin-mediated regulation of antiviral and inflammatory signaling pathways. Some terms like X-chromosome dosage compensation appear ancillary. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0051865","count":12},{"id":"GO:1901253","count":11},{"id":"GO:1903762","count":11},{"id":"GO:0045087","count":11}]},{"hash":"1381486434328954912","title":"Rho-driven lamellipodium and actin assembly","description":"This cluster\u2019s strongest signal is actin cytoskeleton remodeling, with terms for lamellipodium assembly, actin filament polymerization and bundling, and regulation of Rho signaling. Megakaryocyte development also aligns with cytoskeletal rearrangements during platelet formation, supporting a theme of dynamic actin remodeling. Although insulin secretion and NF-kappaB signaling appear among the terms, the dominant pattern ties to Rho\u2011driven actin dynamics and lamellipodium formation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0035773","count":4},{"id":"GO:0034351","count":3},{"id":"GO:0007249","count":3}]},{"hash":"2208816768373119870","title":"Embryonic development and tissue differentiation","description":"The top GO terms cluster around placental and organogenesis processes (trophoblast giant cell differentiation, embryonic placenta development, pancreas development, cartilage morphogenesis, EMT in heart cushion formation) and left-right patterning, indicating a general embryonic development/differentiation program. Additional terms for mRNA splicing and transcriptional regulation suggest involvement in developmental gene expression control.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":13},{"id":"GO:0060806","count":12},{"id":"GO:0035270","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060536","count":12}]},{"hash":"829017819908653909","title":"Innate antiviral response and ubiquitin regulation","description":"The cluster shows enrichment for innate immune response, defense against virus, and dsRNA sensing, pointing to antiviral signaling, along with ubiquitin-dependent protein degradation/ERAD processes that commonly regulate antiviral pathways. While a few terms pertain to transcription or snoRNP assembly, the dominant theme centers on innate antiviral activity and ubiquitin-mediated regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0060546","count":2}]},{"hash":"1244588561965395990","title":"Growth factor\u2013mediated signaling and tissue morphogenesis","description":"The cluster is enriched for signaling-related GO terms including ERK cascade activation, TGF-beta and PDGF responses, insulin signaling, calcium signaling, and STAT phosphorylation, along with cell\u2013cell signaling and developmental processes like cartilage condensation and smooth muscle migration. This points to a coherent theme of growth factor\u2013driven signal transduction governing tissue development and remodeling. ","confidence":"High","size":29,"edges":246,"triangles":903,"max_degree":24,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":24},{"id":"GO:0001502","count":18},{"id":"GO:0070374","count":17},{"id":"GO:0032869","count":16},{"id":"GO:0050850","count":16}]},{"hash":"296419660302723712","title":"Neural development and synaptic formation","description":"The top GO terms point strongly to neural development and synapse-related processes (dendritic spine morphogenesis, optic nerve morphogenesis, trans-synaptic signaling, and synapse assembly), with additional developmental terms like axial mesoderm formation. While some terms are broader, the coherent neural/synaptic pattern supports this label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032092","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0048147","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0021631","count":4}]},{"hash":"569759702836530619","title":"Neural development and sensory processing","description":"This cluster centers on neural differentiation and function, with terms spanning compound eye photoreceptor development, sensory perception of sound and balance, synaptic plasticity and excitatory signaling, and social/behavioral aspects. These recurrent neural and sensory GO terms suggest the proteins collectively relate to nervous system development and sensory information processing.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051835","count":6},{"id":"GO:0001751","count":5},{"id":"GO:0006915","count":5},{"id":"GO:2000463","count":5},{"id":"GO:0071625","count":5}]},{"hash":"1503940520667927321","title":"Neurotransmitter transport and metabolism","description":"Enriched terms center on transport and metabolism of neurotransmitters (dopamine, serotonin, glycine, taurine, proline) and neurotransmission (glycine secretion/uptake), with supporting brain-development terms (thalamus and adenohypophysis development) suggesting a neuroendocrine/brain signaling theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":9},{"id":"GO:0042420","count":8},{"id":"GO:1905847","count":7},{"id":"GO:0015734","count":7},{"id":"GO:0051610","count":7}]},{"hash":"1561128649851132028","title":"Embryonic morphogenesis and organogenesis","description":"The cluster includes multiple developmental morphogenesis terms across diverse organs (eye, heart, brain, lung) and patterning (rhombomere development), plus transcriptional regulation by RNA polymerase II, indicating a cohesive theme of embryonic organ development and gene regulation networks.","confidence":"High","size":29,"edges":191,"triangles":324,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0048048","count":11},{"id":"GO:0000122","count":10},{"id":"GO:0060441","count":9},{"id":"GO:0043010","count":9}]},{"hash":"1576467523300524747","title":"Ubiquitin-regulated protein turnover and signaling","description":"The top GO terms are dominated by ubiquitin-related processes, including ubiquitin-dependent protein catabolic process and protein ubiquitination (including K33-linked), indicating a focus on protein turnover and ubiquitin-mediated regulation. Additional terms point to intracellular signaling and growth/differentiation processes (cell growth, intracellular signal transduction, fat cell differentiation, hepatocyte apoptotic process). Together they suggest a cluster centered on ubiquitin-mediated control of signaling and cellular fate, including regulation of cell cycle/transcription. Therefore the label reflects the common theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0032212","count":8},{"id":"GO:0000083","count":8},{"id":"GO:0035556","count":8},{"id":"GO:0016049","count":8}]},{"hash":"1956220855788184374","title":"Neural and Inner Ear Development","description":"Based on the top GO terms, the cluster is enriched for brain and midbrain development, inner ear development, sensory perception of sound, and positive regulation of synapse assembly, pointing to neural/sensory system development and synapse formation. The presence of locomotory behavior and multicellular development terms supports broader development, but the dominant theme remains neural and sensory maturation and connectivity. Therefore \u201cNeural and Inner Ear Development\u201d captures the main function represented.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007626","count":11},{"id":"GO:0000122","count":10},{"id":"GO:0048839","count":10},{"id":"GO:0007420","count":9},{"id":"GO:1903142","count":9}]},{"hash":"1730282793709377741","title":"Angiogenesis and endothelial barrier remodeling","description":"The top GO terms emphasize angiogenesis, endothelial barrier establishment, and cell-cell junction organization, with proteolysis-related activities (plasminogen activation, fibrinolysis) supporting remodeling. While there are miscellaneous organ-development terms present, the dominant cluster signal centers on vascular formation and barrier integrity, with some immune activity as a secondary context.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0003323","count":5},{"id":"GO:0045216","count":5},{"id":"GO:1903142","count":5},{"id":"GO:0048839","count":5}]},{"hash":"7322914109065687","title":"Developmental signaling and skeletal development","description":"The cluster shows a convergence on developmental processes with a focus on skeletal biology: terms related to skeletal system development, regulation of bone mineralization, and growth hormone signaling, plus calcium-mediated signaling, all pointing to signaling pathways that guide bone formation and development. While there are also general cellular processes like apoptosis and DNA replication present, the strongest theme centers on development and skeletal formation, hence this label.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0001890","count":4},{"id":"GO:2000114","count":4}]},{"hash":"383996205712238388","title":"Neural and Skeletal Development Regulators","description":"The Top Terms show strong signals for skeletal system development and multiple nervous system development terms (neural tube closure, forebrain development, spinal cord development), suggesting the proteins cluster around vertebrate developmental programs guiding CNS formation and skeletal patterning. Additional terms like DNA-templated transcription, mitotic cell cycle, and microtubule-based movement indicate general cell proliferation and cytoskeletal processes typical of developing tissues, supporting a cohesive theme of developmental regulation rather than a single pathway. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0001843","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0030900","count":8}]},{"hash":"1684463879622941649","title":"Host cell adhesion and innate immunity","description":"This cluster centers on cell-cell adhesion, with strong signals for both homophilic and heterophilic adhesion, and an innate immune response signal, plus a note on symbiont entry into host cells, suggesting proteins involved in how cells stick together and interact with host-associated microbes. Some other GO terms (myelination, skeletal development, heart rate regulation) may reflect multifunctionality or annotation breadth, but the dominant theme is adhesion-related host interactions. ","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0045087","count":10},{"id":"GO:0046718","count":10},{"id":"GO:0014068","count":10}]},{"hash":"1063867767819330019","title":"Cell Cycle Progression and Gene Expression","description":"The dominant GO terms center on mitotic cell cycle, cell division, and sister chromatid cohesion, indicating a core focus on cell proliferation. Additional terms relate to transcription and translation initiation, suggesting coordinated regulation of gene expression during cell cycle progression. Other signals like vesicle transport and TGF-beta response appear as supporting regulatory context. Overall, the cluster seems to capture cells' drive to proliferate with associated gene expression programs.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006890","count":4}]},{"hash":"499344542302477071","title":"Developmental Morphogenesis and Signaling","description":"The top terms cluster around embryo development and organogenesis\u2014midbrain and forebrain morphogenesis, retinal ganglion cell axon guidance, male gonad development, and ureteric bud branching\u2014along with Wnt signaling and transcriptional regulation, suggesting proteins involved in developmental signaling and morphogenesis. Some terms about complement activation appear as potential outliers, but the core theme is developmental processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0003323","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0006958","count":6}]},{"hash":"1435913931898944394","title":"ECM remodeling and morphogenesis","description":"The terms point to collagen fibril organization and integrin-mediated adhesion, coupled with a cellular response to mechanical stimulus, which together indicate extracellular matrix remodeling and mechanotransduction. The inclusion of wound healing, endochondral ossification, face morphogenesis, and EMT-related processes further supports a cohesive theme of ECM-driven morphogenesis and tissue remodeling during development and repair.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030199","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0033627","count":5},{"id":"GO:0035987","count":5},{"id":"GO:0060325","count":5}]},{"hash":"1503349392428662980","title":"Collagen fibril organization and angiogenesis","description":"Most top GO terms cluster around extracellular matrix and vascular biology: collagen fibril organization, blood coagulation, angiogenesis, fibrinolysis, and signaling related to transforming growth factor beta. This points to a theme of ECM remodeling and regulation of blood vessel formation. A couple of terms like social behavior and mating plug formation are less related and may reflect annotation noise, but do not override the dominant ECM/vascular theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0001525","count":4},{"id":"GO:2000352","count":4},{"id":"GO:0042730","count":4}]},{"hash":"123971303787684126","title":"Cerebellar development and Bergmann glia differentiation","description":"This cluster centers on cerebellar cortex formation and Bergmann glial cell differentiation, with supporting signals from MAPK/ERK and insulin pathways and regulation of proliferation. The GO terms strongly point to cerebellar neural development and glial maturation, tied to signaling regulation.","confidence":"High","size":29,"edges":216,"triangles":1280,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":18},{"id":"GO:0034501","count":18},{"id":"GO:0070373","count":17},{"id":"GO:0000200","count":17},{"id":"GO:0050860","count":17}]},{"hash":"1865071164447080890","title":"Neuronal development and synaptic transport","description":"The top GO terms highlight brain and substantia nigra development and regulation of synaptic vesicle exocytosis, with related cytoskeletal and trafficking processes (tubulin assembly, intracellular transport, Rho signaling), suggesting a coherent theme of neuronal differentiation and synaptic function, with some general proliferation terms present.","confidence":"Medium","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0006886","count":4}]},{"hash":"1746676187985393565","title":"DNA Damage Response and Apoptosis","description":"The top GO terms cluster around DNA replication and DNA repair (base-excision repair) and apoptotic pathways activated by DNA damage (intrinsic apoptotic signaling and execution phase), suggesting the proteins function together in genome maintenance and damage-induced cell death. While a few terms touch on signaling modulation and behavior, the dominant theme is DNA damage response leading to apoptosis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006284","count":3},{"id":"GO:0046580","count":3},{"id":"GO:1903526","count":3},{"id":"GO:0008630","count":3}]},{"hash":"374139080196341952","title":"Platelet activation signaling and actin remodeling","description":"This cluster centers on platelet biology: thrombin-activated receptor signaling, positive regulation of platelet activation, protein secretion by platelets, small GTPase signaling, Rho pathway, and actin cytoskeleton organization. The combination of platelet-specific signaling with cytoskeletal remodeling supports a cohesive module of platelet activation and cytoskeletal dynamics, though a couple of broader terms (e.g., intracellular transport) may reflect shared cellular processes. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":5},{"id":"GO:0070493","count":3},{"id":"GO:0032288","count":3},{"id":"GO:0030845","count":3},{"id":"GO:0035023","count":3}]},{"hash":"235295187171323270","title":"Neural signaling and neuromuscular function","description":"The top GO terms point mainly to neural and muscle signaling and excitability: neuromuscular junction development, membrane and mitochondrial depolarization, cellular response to ATP, and regulation of neural-related processes such as blood pressure control and visual perception. Cytokine production terms (IL-6, IL-1\u03b2) may reflect neural-immune signaling cross-talk, but overall the cluster centers on neuronal communication and neuromuscular activity rather than a single non-neural pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008217","count":5},{"id":"GO:0045779","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0032755","count":3}]},{"hash":"1676253190391554074","title":"Mitochondrial ROS and apoptosis regulation","description":"The cluster\u2019s top GO terms emphasize oxidative/reduction processes and negative regulation of ROS metabolism, along with terms involving mitochondrial cytochrome c release and regulation of apoptotic signaling. This points to a theme centered on mitochondrial stress responses, redox balance, and programmed cell death. Some terms related to development and calcium signaling appear less specifically tied to this core theme, suggesting broader roles or annotation breadth, but the dominant signal is mitochondrial ROS control linked to apoptosis. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:2000378","count":3},{"id":"GO:0009791","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0032091","count":2}]},{"hash":"175967168311794669","title":"Embryonic development and organogenesis","description":"The GO terms point to broad embryonic patterning and organ formation activities, including axis specification, trophectoderm differentiation, forebrain and heart development (pericardium morphogenesis, ventricular septum development), blood circulation, SMAD signaling, and transcriptional regulation, suggesting a cohesive developmental program across tissues.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0072661","count":3},{"id":"GO:0060395","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0008595","count":2},{"id":"GO:0001829","count":2}]},{"hash":"2225600087028755559","title":"Unknown","description":"The top terms are a mix of ubiquitination-related processes (negative regulation of protein ubiquitination, K33-linked ubiquitination, ubiquitin-dependent protein catabolic process) and diverse, seemingly unrelated biological processes (phototropism, germinal center formation, skeletal muscle development, renal sodium ion absorption, IgE isotype switching, analia development). With no edges connecting the proteins and no clear, single functional theme emerging, there isn't a coherent cluster function to name beyond Unknown.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":4},{"id":"GO:0009638","count":4},{"id":"GO:1990390","count":3},{"id":"GO:0048294","count":3},{"id":"GO:0045497","count":3}]},{"hash":"1624417112721525860","title":"Neuronal axonogenesis and vesicle transport","description":"The top GO terms cluster around neural development and axon biology: plus-end-directed vesicle transport along microtubules supports axon growth, axonogenesis, Schwann cell development, and excitatory synaptic activity. While there are some broader terms (heart development, chromatin regulation, xenobiotic response), the strongest and most frequent signals point to neuronal morphogenesis and vesicle trafficking as the core theme. This suggests the proteins act together in guiding axon formation and neural connectivity.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072383","count":4},{"id":"GO:0007114","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0007507","count":3}]},{"hash":"2254309039535805413","title":"Developmental signaling and cell-cycle regulation","description":"This cluster is dominated by GO terms tied to embryo and organ formation (root development, renal vesicle formation, organizer region formation) and pathways that shape tissue patterning (negative regulation of Wnt signaling) together with cell-level controls (cell migration, regulation of the cell cycle, apoptosis, proteasome localization, centromeric cohesion). The combination points to a cohesive theme of developmental morphogenesis driven by regulated signaling and controlled proliferation.","confidence":"High","size":28,"edges":301,"triangles":1768,"max_degree":27,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0016477","count":18},{"id":"GO:0008285","count":18},{"id":"GO:0043065","count":18},{"id":"GO:0090090","count":18},{"id":"GO:0048364","count":17}]},{"hash":"386719385005431804","title":"Organogenesis and Cell Motility","description":"The top GO terms point to development and morphogenesis across multiple tissues (hair follicle, palate, brain, retina, skeletal muscle) plus cell movement processes (lamellipodium/ruffle assembly) and proliferation. The shared theme is organogenesis with motile cell behavior, suggesting these proteins coordinate tissue formation and migration.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0007338","count":3}]},{"hash":"1390719299987957521","title":"Glutathione-dependent redox homeostasis","description":"This cluster is enriched for GO terms tied to redox balance and glutathione metabolism (glutathione metabolic process, glutathionylation, cellular redox homeostasis, cellular oxidant detoxification). Some RNA modification and tRNA processing terms appear as minor associations, which may reflect annotation noise or multi-function proteins, but the dominant signal points to redox control via glutathione pathways.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":3},{"id":"GO:0034599","count":3},{"id":"GO:0032259","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0010731","count":2}]},{"hash":"206106555874599151","title":"Vertebrate embryonic development and patterning","description":"This cluster is enriched for broad embryonic development terms spanning neural development (midbrain development, cerebral cortex regionalization, neuronal commitment in forebrain) and various organogenesis processes (inner ear, skeletal system and muscle development, outflow tract morphogenesis, roof of the mouth). The presence of negative regulation of transcription by RNA polymerase II suggests a role in transcriptional control during these developmental events, implying a general theme of vertebrate embryogenesis and patterning rather than a single, specific pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0048839","count":8},{"id":"GO:0048706","count":7},{"id":"GO:0007519","count":7}]},{"hash":"1258377365880724689","title":"Amino acid and central carbon metabolism cluster","description":"This cluster is dominated by GO terms related to amino acid metabolism (alanine, serine, lysine, kynurenine) and central carbon metabolism (pyruvate, oxaloacetate), suggesting a primary theme of metabolic pathways and biosynthesis. Notch signaling and antibiotic biosynthesis appear among the terms but do not strongly redefine the core function; they may reflect annotation noise or broader regulatory links. Overall, the proteins appear to be involved in amino acid turnover and central metabolism rather than a single signaling module.","confidence":"Medium","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":11},{"id":"GO:0097053","count":11},{"id":"GO:0042853","count":11},{"id":"GO:0019878","count":10},{"id":"GO:0033512","count":8}]},{"hash":"2118874720166471041","title":"Synaptic signaling and spine morphogenesis","description":"This cluster centers on neuronal signaling and synaptic architecture, with GO terms for GPCR signaling, regulation of synaptic plasticity by receptor localization to the synapse, ephrin receptor signaling, and dendritic spine morphogenesis, plus the Wnt signaling pathway. These together point to proteins involved in synaptic signaling and remodeling of dendritic spines, key to plasticity. Some telomere-related terms and an obsolete GPCR term appear but do not change the overall theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:1900383","count":5},{"id":"GO:1901187","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0009408","count":5}]},{"hash":"561860852512294320","title":"Calcium signaling and exocytosis in heart and neurons","description":"The top GO terms converge on calcium-dependent signaling and vesicle exocytosis in excitable tissues: regulation of calcium release, calcineurin-NFAT signaling, voltage-gated calcium channel activity, cardiac muscle contraction, heart development, and neural synaptic plasticity. These together suggest a cluster of proteins that coordinate calcium signaling with exocytosis in cardiac and neuronal contexts; a few terms (like metanephric collecting duct development) appear peripheral, but the core theme remains calcium-driven regulatory pathways of secretion and contractile function.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048168","count":8},{"id":"GO:0072205","count":8},{"id":"GO:0042994","count":8},{"id":"GO:0051281","count":8},{"id":"GO:0060048","count":8}]},{"hash":"1474418871736865119","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":9},{"id":"GO:0006261","count":6},{"id":"GO:0034415","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0000467","count":4}]},{"hash":"1908690889665730349","title":"Cerebellar neuron-glia development and signaling","description":"The cluster's top GO terms strongly converge on cerebellar-specific development and differentiation: Bergmann glial cell differentiation, cerebellar cortex formation, and neuron development, along with regulation of axon regeneration. While broader signaling and cell-cycle terms are present, the cerebellar-focused terms dominate, suggesting a cohesive theme of cerebellar neural development and glial differentiation with associated signaling processes.","confidence":"High","size":28,"edges":256,"triangles":1250,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035335","count":12},{"id":"GO:0000086","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0060020","count":9},{"id":"GO:0050852","count":9}]},{"hash":"2006994422541256616","title":"Neuronal signaling and nociception","description":"This cluster features GO terms tied to neural signaling and pain/drug responses, such as regulation of ERK1/ERK2 cascade, regulation of GABAergic synaptic transmission, sensory perception of pain, and behavioral responses to cocaine and morphine. While retina and heart development terms appear, the dominant pattern is neuronal communication and nociceptive/drug-response pathways, indicating proteins involved in synaptic signaling and pain-related behaviors.","confidence":"High","size":28,"edges":300,"triangles":1695,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":23},{"id":"GO:0007507","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0010759","count":22},{"id":"GO:0060041","count":22}]},{"hash":"672559206748990968","title":"Neural Development and Axon Fasciculation","description":"This cluster is dominated by GO terms tied to neural development, especially axon guidance and connectivity: axonal fasciculation, corpus callosum development, and positive regulation of synapse assembly, with supporting signals like GTPase activity and neuronal signaling. While a few terms relate to telomere maintenance and other tissues, the neural development theme best explains the shared functions of these proteins.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0032212","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0097156","count":3},{"id":"GO:0007413","count":3}]},{"hash":"1507145046678545973","title":"Dopaminergic Synaptic Signaling and Drug Response","description":"This cluster shows strong enrichment for dopaminergic synaptic transmission, behavioral responses to drugs (cocaine, morphine), and signaling cascades (ERK), indicating a cohesive theme of dopamine-mediated neuronal signaling and drug-evoked plasticity. While some terms (e.g., heart development, visual perception/learning) appear, the dominant, repeatedly represented functions point to neural reward pathways and drug responsiveness.","confidence":"High","size":28,"edges":347,"triangles":2587,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0010759","count":22},{"id":"GO:0048148","count":22},{"id":"GO:0071380","count":22}]},{"hash":"819166876915905691","title":"Neuro-immune developmental signaling","description":"The top GO terms cover neural development (axionogenesis, pain perception), immune signaling (mast cell cytokine production, GM-CSF production), endocrine responses (estrogen response, growth hormone receptor signaling), and skeletal/epithelial development (lung morphogenesis, cartilage condensation), suggesting a multisystem developmental signaling cluster rather than a single, narrow pathway. This justifies a label focused on cross-tissue developmental signaling.","confidence":"Medium","size":28,"edges":319,"triangles":2028,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":28},{"id":"GO:0060502","count":28},{"id":"GO:0007409","count":28},{"id":"GO:0070926","count":28},{"id":"GO:0045425","count":28}]},{"hash":"1302319356442738901","title":"Ribosome biogenesis and translation","description":"The cluster is enriched for ribosome biogenesis, ribosomal subunit biogenesis, translation, and cytoplasmic translation, with tRNA modification also represented, pointing to a core protein synthesis machinery. Some cell division terms appear but are likely secondary to the dominant ribosome/translation function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0042274","count":7},{"id":"GO:0006412","count":7},{"id":"GO:0002181","count":6},{"id":"GO:0090529","count":5}]},{"hash":"1323847282225100950","title":"Vitamin and secondary metabolite biosynthesis with redox processes","description":"This cluster centers on biosynthetic processes for vitamins and secondary metabolites (biotin, menaquinone, antibiotics, alkaloids) and includes redox-related activities (oxidation\u2013reduction, detoxification). The combination of biosynthesis and redox metabolism suggests a metabolic module focused on small-molecule production and related redox balance, with some catabolic terms present.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0055114","count":7},{"id":"GO:0098869","count":7},{"id":"GO:0009102","count":7},{"id":"GO:0009234","count":6}]},{"hash":"546807523800618485","title":"Lipid Biosynthesis and Remodeling","description":"This cluster\u2019s top GO terms are dominated by lipid-related processes: phosphatidylcholine and cardiolipin biosynthesis/remodeling, CDP-diacylglycerol biosynthesis, and triglyceride biosynthesis. These point to a cohesive theme of lipid metabolism and membrane lipid remodeling, with a few developmental terms likely incidental to the broader lipid-focused functions. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":4},{"id":"GO:0016024","count":4},{"id":"GO:0019432","count":4},{"id":"GO:0060217","count":4},{"id":"GO:0002071","count":4}]},{"hash":"2056556201570010578","title":"Prostaglandin and leukotriene biosynthesis in inflammation","description":"Top terms indicate strong enrichment for prostaglandin and leukotriene biosynthesis, plus acute inflammatory responses and LPS response, pointing to involvement in lipid mediator production that drives inflammation; regulatory signals like NF-kappaB may modulate this pathway. An eicosanoid biosynthesis and inflammatory theme best captures the cluster's function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:1901223","count":3},{"id":"GO:0002526","count":2},{"id":"GO:0070207","count":2},{"id":"GO:0002540","count":2}]},{"hash":"744725985673294071","title":"Membrane Ion Transporters with Immune Defense","description":"GO terms are dominated by transmembrane ion transport (K+ and Na+) indicating membrane transporters, with several immune-defense terms suggesting antiviral roles for some members. This makes a focused label around membrane ion transport with potential immune function appropriate.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0035725","count":3},{"id":"GO:0051291","count":3},{"id":"GO:2001246","count":3},{"id":"GO:0045842","count":3}]},{"hash":"509172685413444432","title":"Transcriptional regulators of neural development","description":"This cluster shows strong enrichment for transcription-related GO terms (RNA polymerase II transcription, DNA-templated transcription) alongside multiple neural lineage specification terms (subpallium neuron fate commitment; cortical GABAergic interneuron differentiation; spinal cord motor neuron and oligodendrocyte fate specification). Together these suggest proteins that drive neural development through transcriptional control, with supporting signals of epigenetic regulation (histone deacetylation) and broader developmental control. ","confidence":"High","size":27,"edges":243,"triangles":1249,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0031018","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0060163","count":8},{"id":"GO:0021892","count":8}]},{"hash":"1658775881044960208","title":"Neural development and neuron/glial differentiation","description":"This cluster is dominated by GO terms related to neural development and cell fate specification in the CNS, including floor plate development, spinal cord neuron and oligodendrocyte differentiation, subpallium and cortex interneuron differentiation, amacrine cell differentiation, and somitogenesis\u2014all indicating early to mid neurodevelopment and lineage commitment. A generic transcription by RNA polymerase II term appears but does not outweigh the central neural theme. A few development terms like endocrine pancreas and lung vasculature are broader but do not override the neural emphasis. ","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":24},{"id":"GO:0033504","count":15},{"id":"GO:0060426","count":15},{"id":"GO:0035881","count":15},{"id":"GO:0001756","count":15}]},{"hash":"1403064948503003121","title":"Developmental signaling and growth regulation","description":"This cluster is enriched for pathways and processes tied to development and tissue growth control, notably Wnt signaling, Hippo signaling, forebrain development, keratinocyte differentiation, and embryonic skeleton morphogenesis, along with apoptosis and regulation of cell proliferation. The recurring theme is coordinated signaling that governs development, differentiation, and cell-number control, with immune defense being a less central note. Overall, the proteins appear to participate in developmental signaling networks that regulate growth and differentiation.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":18},{"id":"GO:0035329","count":17},{"id":"GO:0006915","count":17},{"id":"GO:0030216","count":17},{"id":"GO:0060044","count":17}]},{"hash":"2182247975541347474","title":"Ubiquitin-Mediated Regulation in Immunity and Muscle","description":"Most terms are centered on ubiquitin-dependent protein catabolic processes and different modes of ubiquitination, indicating a core role for ubiquitin signaling. Immune-related terms (germinal center formation, B cell receptor signaling) and muscle-development terms (skeletal muscle fiber/tissue development) co-occur, suggesting ubiquitin pathways modulate both immune signaling and muscle biology. The circadian rhythm regulation term adds a broader regulatory layer to these ubiquitin-mediated processes. Overall, the cluster coherently highlights ubiquitin-driven regulation with immune and muscle contexts.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":26},{"id":"GO:0042752","count":19},{"id":"GO:1990390","count":14},{"id":"GO:0002467","count":14},{"id":"GO:0048741","count":14}]},{"hash":"1795223494165168515","title":"Chromatin regulation and proteostasis","description":"Terms point to nuclear/chromatin processes (spindle assembly, histone methylation, spermatid nucleus differentiation) and protein turnover (ubiquitination and proteolysis); the remaining terms touch on development in immune and muscle contexts, suggesting a broad regulatory cluster centered on chromatin dynamics and proteostasis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":7},{"id":"GO:0007289","count":7},{"id":"GO:0080182","count":6},{"id":"GO:0098532","count":6},{"id":"GO:1990390","count":5}]},{"hash":"163117865945880580","title":"Developmental gene regulation and organogenesis","description":"The top GO terms cluster around developmental processes in multiple tissues (midbrain, inner ear, liver, hindlimb, gonad) and axis specification, with a strong signal for transcriptional regulation by RNA polymerase II. This suggests the proteins collectively participate in controlling gene expression during embryogenesis and organ formation, with some incidental immune-related annotations. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":9},{"id":"GO:0048839","count":9},{"id":"GO:0003148","count":8},{"id":"GO:0008584","count":8}]},{"hash":"506766244004926222","title":"Synaptic Signaling and Trafficking","description":"The cluster centers on neuronal communication and protein trafficking: nitric oxide\u2013mediated retrograde signaling, receptor localization to synapse, and exocytosis, together with Golgi localization and trafficking steps. Developmental neural processes (convergent extension in the neural plate) and exploration behavior further support a neural/behavioral theme. Some terms are historical/obsolete, but the dominant pattern is synaptic signaling and trafficking.","confidence":"High","size":27,"edges":10,"triangles":0,"max_degree":9,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0098924","count":17},{"id":"GO:0070433","count":17},{"id":"GO:1901206","count":17},{"id":"GO:2000009","count":16},{"id":"GO:0022007","count":16}]},{"hash":"1511944458610045937","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":112,"triangles":286,"max_degree":19,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048343","count":16},{"id":"GO:0060501","count":16},{"id":"GO:0003146","count":16},{"id":"GO:0021999","count":16},{"id":"GO:0061374","count":16}]},{"hash":"543742858998814444","title":"Mitotic division and ubiquitin regulation","description":"The top GO terms cluster around mitosis, cell division, and microtubule dynamics, with additional emphasis on ubiquitin-dependent processes (ubiquitination and ERAD). There are also related general processes like ER-Golgi transport and transcription, suggesting a set of proteins involved in coordinating cell division with protein turnover and trafficking. This points to a cohesive theme of mitotic machinery coupled to ubiquitin-mediated regulation, though some terms are broader housekeeping functions. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0000920","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1928877611908566410","title":"Axon guidance and synapse assembly","description":"This cluster is dominated by GO terms related to neural development and neuronal connectivity, including axon guidance (semaphorin-plexin signaling, axonal fasciculation, sympathetic neuron projection guidance), neural crest migration, and synapse assembly/organization, suggesting a cohesive role in neural wiring and nerve structure; a single complement activation term appears but does not override the dominant neural context.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0006958","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0007413","count":10},{"id":"GO:0051965","count":10}]},{"hash":"1942661863784833732","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":335,"triangles":2573,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000902","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0034501","count":6},{"id":"GO:0090263","count":5},{"id":"GO:0045056","count":5}]},{"hash":"509779258874543169","title":"Neural development and synaptic function","description":"The cluster centers on nervous system development, brain and inner ear formation, and synaptic maturation, with multiple GO terms for brain development, inner ear development, sensory perception of sound, and glutamatergic synaptic transmission, along with regulation of synapse assembly and locomotory behavior, suggesting a cohesive role in neural development and synaptic activity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":5},{"id":"GO:0021957","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0007605","count":4}]},{"hash":"916696661974544543","title":"Meiosis-Linked Signaling and RNA Transport","description":"The cluster prominently features meiosis-specific terms (sister chromatid cohesion centromeric; female meiotic nuclear division) alongside processes tied to signaling and RNA handling (positive regulation of GTPase and kinase activity; mRNA transport; nuclear import of ribosomal proteins). While there are some stress-related terms (lipopolysaccharide response; mitochondrial depolarization) suggesting broader regulatory roles, the strongest shared theme appears to be regulators of meiosis and gene expression through signaling and RNA transport pathways.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0051754","count":5},{"id":"GO:0071222","count":4},{"id":"GO:0051901","count":4},{"id":"GO:0007143","count":4}]},{"hash":"952175374196820350","title":"Craniofacial and Cardiac Morphogenesis","description":"The dominant GO terms point to embryonic morphogenesis across craniofacial structures (roof of mouth development, embryonic cranial skeleton morphogenesis) and heart-related morphogenesis (outflow tract septum morphogenesis), with supporting signals from midbrain and mesoderm development. These indicate a coordinated developmental program affecting multiple tissues, rather than a single pathway. Some terms involve transcriptional regulation and iron homeostasis, but the core theme is embryonic morphogenesis across craniofacial and cardiac contexts; the lack of edges suggests shared annotation rather than direct interactions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060021","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0071260","count":5},{"id":"GO:0003323","count":5}]},{"hash":"1709334254364798066","title":"Brush border microvilli and actin cytoskeleton","description":"The top terms converge on intestinal brush border features (terminal web assembly, regulation of microvillus length, glucose absorption) and actin-centered cytoskeletal dynamics (actin filament movement, Rho signaling, centrosome maintenance), suggesting proteins shared for microvilli organization and cytoskeletal regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1902896","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0001951","count":4},{"id":"GO:0032532","count":4},{"id":"GO:0045214","count":4}]},{"hash":"483361056070672746","title":"Steroid, lipid, and pigment metabolism","description":"These proteins cluster around diverse metabolic biosynthesis pathways: steroid hormone biosynthesis (estrogen, C21-steroid hormones; androgen catabolic), lipid-related processes (very long-chain fatty acid biosynthesis; retinol metabolism), pigment production (melanin biosynthesis), and cofactor biosynthesis (tetrahydrobiopterin). The common thread is coordinated metabolism across lipids, steroids, vitamins, and pigments, with a minor note of antibiotic-response signaling that may reflect broader stress-related metabolic adjustments.","confidence":"High","size":27,"edges":38,"triangles":42,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":13},{"id":"GO:0006729","count":12},{"id":"GO:0042761","count":12},{"id":"GO:0042572","count":12},{"id":"GO:0042438","count":12}]},{"hash":"1425084898998306874","title":"Neuronal synapse formation and behavior","description":"The top GO terms point to neuronal development and synaptic function: dendritic spine morphogenesis, regulation of synapse assembly, and positive regulation of excitatory postsynaptic potential, all indicating synaptic formation and signaling. Additionally, regulation of Rho protein signaling and cell polarity relate to cytoskeletal organization essential for spine development. Behavioral terms like social behavior and vocalization behavior suggest a link to neuronal circuits underlying communication. Taken together, the cluster appears to represent proteins involved in establishing and modulating synapses and associated neuronal behaviors.","confidence":"High","size":27,"edges":43,"triangles":10,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0035176","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0032005","count":4},{"id":"GO:2000769","count":4}]},{"hash":"1007169573063284392","title":"Ribosome Biogenesis and Translation Machinery","description":"This cluster is strongly enriched for translation-related processes (translation, ribosome biogenesis, ribosomal small subunit biogenesis, and tRNA modification), indicating a core ribosome/translation module. It also includes cell cycle and cell division terms and cell septum assembly, suggesting coordination between protein synthesis capacity and cell proliferation. A secondary stress-response term is present but not central. Overall, the dominant theme is ribosome biogenesis and translation with links to division.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:1903833","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0006400","count":5}]},{"hash":"139744252445837691","title":"Synaptic Vesicle Trafficking and Plasticity","description":"The dominant GO terms point to synaptic transmission and plasticity (excitatory postsynaptic potentials, long-term potentiation, neurotransmitter secretion, vesicle docking, receptor localization), complemented by Golgi- and vesicle-transport processes and autophagosome maturation, suggesting a cluster of proteins coordinating vesicle trafficking and synaptic modulation.","confidence":"High","size":27,"edges":48,"triangles":37,"max_degree":12,"top_function":"vesicle-mediated transport","top_go_terms":[{"id":"GO:2000463","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0016081","count":8},{"id":"GO:1903358","count":8},{"id":"GO:0010701","count":7}]},{"hash":"319760706266354274","title":"Diverse biosynthesis pathways","description":"The proteins in this cluster are associated with a wide range of biosynthetic processes (poly-hydroxybutyrate, tetrahydrobiopterin, retinol, melanin, phylloquinone, estrogen, androgen biosynthesis, etc.), suggesting they participate in multiple, diverse biosynthetic activities rather than a single specific pathway.","confidence":"Medium","size":27,"edges":189,"triangles":574,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":24},{"id":"GO:0042619","count":24},{"id":"GO:0006729","count":23},{"id":"GO:0042761","count":23},{"id":"GO:0042572","count":23}]},{"hash":"784902341181342285","title":"Spliceosome-Driven mRNA Processing","description":"The cluster is dominated by terms about mRNA splicing via the spliceosome (including alternative splicing regulation and generic splicing), mRNA processing events like polyadenylation and export, and related mRNA stability in stress; a note on translation initiation factors suggests linkage to mRNA maturation affecting translation. This supports a cohesive theme of mRNA processing and splicing machinery.","confidence":"High","size":27,"edges":241,"triangles":1096,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":19},{"id":"GO:0000381","count":17},{"id":"GO:0045292","count":17},{"id":"GO:0010610","count":17},{"id":"GO:0097010","count":15}]},{"hash":"1886981875321432635","title":"Epithelial polarity and cytoskeletal dynamics","description":"Top GO terms center on establishment of epithelial cell polarity and cell migration, with notable emphasis on Arp2/3-mediated actin nucleation regulation. These point to a theme of cytoskeletal organization and membrane-associated polarity. Several terms (telomere maintenance, vasopressin secretion, salicylic acid signaling, glycerophospholipid catabolism) are less cohesive with this core, suggesting the cluster is mainly about structural cell biology rather than a single signaling pathway. Overall, the cluster seems enriched for cellular architecture and motility processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090162","count":10},{"id":"GO:0016477","count":10},{"id":"GO:0097284","count":10},{"id":"GO:0033028","count":10},{"id":"GO:0034316","count":9}]},{"hash":"1880192891602501295","title":"Muscle and synaptic actin remodeling","description":"Top GO terms indicate extensive actin cytoskeleton assembly/remodeling (stress fibers, filopodia, contractile rings) with links to muscle development/contraction and dendritic spine morphogenesis, plus subsynaptic reticulum organization. This suggests a cohesive theme of actin dynamics in muscle and neuronal synapses, supporting a label centered on actin remodeling across muscle and synapses.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051496","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0051289","count":3},{"id":"GO:1990255","count":3}]},{"hash":"2009401684998434626","title":"Thermal response and sensory processing cluster","description":"This cluster is enriched in temperature-related responses (diet induced thermogenesis, cellular response to temperature stimulus, heat generation) and broader sensory terms (pain perception, xenobiotic response). A few vision-related terms appear, but the dominant theme points to thermal sensing and sensory processing.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0008542","count":5}]},{"hash":"35925089249257261","title":"Integrin signaling and cell-matrix adhesion","description":"Based on the top GO terms, the cluster is enriched for integrin-mediated signaling, various forms of cell adhesion (including cell-matrix and heterotypic cell-cell adhesion), and extravasation, suggesting a cohesive theme around adhesion to extracellular matrix and related signaling pathways. Some outlier terms (mitotic spindle assembly and certain transports) are present but do not overturn the dominant adhesion/ECM signal. Overall, the cluster appears to represent adhesion and ECM interaction processes, possibly in developmental contexts.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0007229","count":7},{"id":"GO:0090307","count":6},{"id":"GO:0034113","count":6},{"id":"GO:0070208","count":6},{"id":"GO:0007161","count":6}]},{"hash":"1860288270728552732","title":"Immune signaling and cytoskeletal remodeling","description":"The cluster shows strong enrichment for immune cell processes (B and T cell differentiation, TCR signaling, IL-7 response) together with actin-related events (actin filament binding, cell migration), suggesting a module where immune activation is coupled to cytoskeletal dynamics and trafficking.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":26},{"id":"GO:0006915","count":24},{"id":"GO:0098761","count":24},{"id":"GO:0002344","count":24},{"id":"GO:1904531","count":24}]},{"hash":"1501266404525288493","title":"Neural Development and Axon Guidance","description":"The top GO terms strongly cluster around nervous system development, especially hippocampus development and positive regulation of axon extension, with supporting signaling terms like Wnt and ERK cascades. While there are a few immune-related terms (T cell signaling, mast cell degranulation), the dominant theme is neuronal development and axon guidance mediated by signaling pathways. Confidence: Medium","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0045773","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0043366","count":8}]},{"hash":"1399574850454174253","title":"Embryonic Development and Differentiation","description":"Based on the top GO terms, the cluster centers on developmental and differentiation processes (blastocyst development, myotube differentiation, sympathetic nervous system development, vitellogenesis) with supporting signals like G1/S cell cycle transitions and differentiation-related processes. The presence of general regulatory terms (phosphorylation, transcription regulation) complements but does not override the developmental theme. The lack of edges suggests these may be functionally related terms rather than a tightly connected protein network.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0007296","count":3}]},{"hash":"1147955485157383588","title":"Unknown","description":"The GO terms span chromatin localization, collagen fibril organization, cell division, Toll-like receptor signaling, neuronal excitability regulation, imaginal disc polarity, neuronal migration, and CAMKK-AMPK signaling, which cover diverse, unrelated processes with no single shared function to tie the cluster together.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0034130","count":3},{"id":"GO:0090394","count":3}]},{"hash":"365524455892421616","title":"Steroid signaling and prostate development","description":"Dominant terms cluster around steroid hormone receptor complex assembly, male sex differentiation, and prostate gland development, indicating a core function in steroid-driven prostate development. The other terms (interferon response, unfolded protein response, ubiquitination) likely reflect broader cellular stress or quality-control processes that accompany diverse cell states, but do not define the primary theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006463","count":7},{"id":"GO:0046661","count":7},{"id":"GO:0071357","count":7},{"id":"GO:0030850","count":7},{"id":"GO:0070979","count":6}]},{"hash":"1852638454220629764","title":"Gonad and germline development with spindle dynamics","description":"The cluster centers on germline/gonad development terms (germarium-derived oocyte differentiation, cystoblast division, male gonad development) and spindle/centrosome processes (mitotic/meiotic spindle assembly, centrosome maintenance) with associated signaling (Wnt, Rho), indicating a cohesive role in germline or gonadal development coupled to cell division machinery.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0045769","count":4},{"id":"GO:0051661","count":4},{"id":"GO:0021873","count":4},{"id":"GO:0090307","count":3}]},{"hash":"876432812703663257","title":"MVB-Mediated Vacuolar Sorting","description":"The cluster centers on endosomal/vacuolar sorting and degradation. Dominant GO terms include multivesicular body sorting, protein transport to vacuole, and ubiquitin-dependent and -independent protein catabolism via the MVB pathway, indicating a core function in vacuolar targeting and turnover. Other terms (cell cycle, egg chamber stalk follicle cells, copper homeostasis, ATP export, viral life cycle) are less central to this theme.","confidence":"High","size":26,"edges":28,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0030713","count":5},{"id":"GO:0006878","count":4},{"id":"GO:0006623","count":4}]},{"hash":"2179172907326577684","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"This cluster is strongly enriched for ubiquitin-dependent protein degradation, including ubiquitin-dependent catabolic processes, SCF-proteasomal pathways, and protein polyubiquitination, with additional hints of ERAD and stress-related signaling. The dominant theme ties to proteostasis via the ubiquitin\u2013proteasome system, with some peripheral links to DNA damage response and synaptic remodeling.","confidence":"High","size":26,"edges":23,"triangles":6,"max_degree":7,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0031146","count":12},{"id":"GO:0000209","count":11},{"id":"GO:1903378","count":10},{"id":"GO:0031571","count":10}]},{"hash":"732210224952573108","title":"Developmental morphogenesis and ECM remodeling","description":"This cluster is enriched for terms tied to morphogenesis and tissue remodeling, especially organ- and lung-related development: lung branching and epithelial tube branching, basement membrane disassembly, and collagen catabolic processes, plus related signaling and growth responses (Wnt regulation, thyroid hormone response, neural precursor proliferation, intramembranous ossification, decidualization). The convergence of these processes suggests a theme of developmental organogenesis and extracellular matrix remodeling. Some entries like T cell mediated cytotoxicity are less core to morphogenesis but may reflect broader biology or annotation overlaps.","confidence":"High","size":26,"edges":194,"triangles":763,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0001913","count":10},{"id":"GO:0060448","count":10},{"id":"GO:0034769","count":10},{"id":"GO:0001957","count":10},{"id":"GO:0060441","count":10}]},{"hash":"1885941269797022340","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":319,"triangles":2464,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0000398","count":11},{"id":"GO:1901407","count":11},{"id":"GO:1903608","count":11}]},{"hash":"2142692963137694216","title":"RNA processing and antiviral innate immunity","description":"This cluster centers on RNA metabolism and processing (miRNA and rRNA processing; regulation of post-transcriptional gene silencing) alongside strong antiviral/innate immune signals (response to virus, interferon-alpha, innate immune response, and suppression of viral genome replication), with translation as a general protein-synthesis context and some ties to immune cell proliferation. The cohesive theme is RNA processing coupled to antiviral defense mechanisms.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0009615","count":9},{"id":"GO:0008285","count":8},{"id":"GO:0035196","count":8},{"id":"GO:1902033","count":8}]},{"hash":"539823234537771750","title":"Embryonic morphogenesis and transcription regulation","description":"This cluster centers on broad developmental processes across multiple tissues (eye, lung, palate, bone, uterus, muscle) and includes key transcriptional control by RNA polymerase II, pointing to coordinated embryonic organogenesis driven by transcription regulation.","confidence":"High","size":26,"edges":228,"triangles":915,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0060441","count":10},{"id":"GO:0043010","count":10},{"id":"GO:0048048","count":10}]},{"hash":"2014334745410371678","title":"DNA Repair, Recombination, and Telomere Maintenance","description":"This cluster centers on genome maintenance: base-excision repair, DNA repair, replication, recombination (meiotic and mitotic), and telomere maintenance via recombination. The inclusion of responses to oxidative stress and xenobiotic stimuli supports a broader DNA damage response context, while aging is mentioned but appears obsolete. Overall, the terms cohesively point to a core network maintaining genome integrity.","confidence":"High","size":26,"edges":111,"triangles":169,"max_degree":21,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":7},{"id":"GO:0006310","count":7},{"id":"GO:0042493","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0007131","count":5}]},{"hash":"773722538307505636","title":"Developmental regulation and morphogenesis","description":"Top GO terms point to multicellular development and tissue differentiation (anterior head development, phloem development, atrial muscle differentiation) along with regulation of gene expression (RNA polymerase II transcription, miRNA-mediated silencing) and cell-matrix adhesion. The cluster appears to group proteins involved in developmental processes and their transcriptional/post-transcriptional regulation, spanning diverse organisms and tissues.","confidence":"Medium","size":26,"edges":109,"triangles":142,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007160","count":8},{"id":"GO:0035852","count":7},{"id":"GO:2000744","count":7},{"id":"GO:0072284","count":7},{"id":"GO:0045805","count":7}]},{"hash":"1045544744190569009","title":"Ubiquitination and deubiquitination in innate immune signaling","description":"The dominant GO terms point to ubiquitin modification and removal (protein ubiquitination and various K-linked deubiquitinations), suggesting a core function in ubiquitin signaling. The presence of innate immune response and NF-kappaB signaling terms indicates a role in immune regulation, while ERAD-associated and proteostasis terms support a link to protein quality control. The mRNA processing term is less central but could reflect coordinated regulation of RNA-binding proteins via ubiquitination. Overall, the cluster centers on ubiquitin-mediated regulation of signaling and quality control relevant to immunity.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0035523","count":5},{"id":"GO:0044313","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1980540304134864871","title":"DNA Replication and Transcription Regulation","description":"The strongest GO signals are DNA biosynthetic process, DNA replication, and positive regulation of DNA-templated transcription, with supporting evidence from the DNA damage response to X-ray and transcription initiation/regulation terms. A few terms relate to proteoglycan biosynthesis, which appear peripheral to the core nucleic-acid\u2013related theme, likely reflecting annotation noise or multifunctional proteins.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071897","count":4},{"id":"GO:0045893","count":3},{"id":"GO:0010165","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0050650","count":3}]},{"hash":"1204578839507649321","title":"Bacterial Lipid Synthesis and Secondary Metabolism","description":"This cluster centers on lipoteichoic acid biosynthesis and fatty acid/CoA metabolism, with links to acetyl-CoA pathways, pyruvate fermentation to acetate, and nonribosomal peptide biosynthesis plus bioluminescence. Together these terms point to bacterial lipid construction and related secondary metabolism, particularly in Gram-positive organisms. Some GO terms related to seeds appear as noise and do not fit the core theme.","confidence":"Medium","size":26,"edges":270,"triangles":1565,"max_degree":25,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0070395","count":13},{"id":"GO:0019427","count":11},{"id":"GO:0010124","count":11},{"id":"GO:0010030","count":11},{"id":"GO:0010214","count":11}]},{"hash":"502726065089797622","title":"CNS Development and Neuroimmune Signaling","description":"This cluster is dominated by nervous system development terms (nervous system development, corpus callosum development, myelination, collagen fibril organization, synapse assembly) and RTK signaling, with additional immune terms (innate immune response, T cell receptor signaling). The combination suggests proteins involved in CNS development that also engage immune-related and extracellular matrix interactions, pointing to neuroimmune coordination in brain maturation.","confidence":"Medium","size":26,"edges":9,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0071372","count":14},{"id":"GO:0042552","count":13},{"id":"GO:0030199","count":13},{"id":"GO:0051965","count":13}]},{"hash":"378210284895008114","title":"Cell Cycle and Developmental Signaling","description":"This cluster is dominated by GO terms related to DNA replication, the centrosome cycle, and nuclear DNA replication regulation, along with signaling pathways like Hippo and Rho, and apoptotic processes, plus embryonic skeletal development steps (cranial skeleton morphogenesis, cartilage condensation). These together suggest a coherent theme of coordinated cell proliferation, cell-cycle control, and growth/morphogenesis signaling, including skeletal development. A few outlier terms (potassium ion transport, sensory perception of pain) are present but do not define the cluster\u2019s core function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":19},{"id":"GO:0006260","count":18},{"id":"GO:0010571","count":17},{"id":"GO:0007098","count":17},{"id":"GO:0048701","count":17}]},{"hash":"222390939674697345","title":"Neural and hair follicle morphogenesis signaling","description":"The cluster's top GO terms cluster around nervous system development, hair follicle morphogenesis and related proliferation, as well as formation of glands (submandibular salivary gland) and lung epithelium. Positive regulation of ERK1/2 signaling suggests a developmental signaling module guiding morphogenesis in neural and epidermal tissues, with cytoskeletal remodeling indicated by actin-related terms. Taken together, they point to a coordinated neural and hair follicle morphogenesis program.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0031069","count":6},{"id":"GO:0071338","count":6},{"id":"GO:0043524","count":6}]},{"hash":"2044199813662536883","title":"Matrix remodeling and coagulation with complement activation","description":"The terms point to tissue remodeling activities: collagen and elastin catabolism, smooth muscle migration, and digestion, alongside coagulation and complement activation (lectin and classical pathways). These functions together suggest ECM remodeling coupled with immune/coagulation processes. Some terms (transcription regulation and midbrain development) are less directly aligned, possibly reflecting broader regulatory roles or annotation noise.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":9},{"id":"GO:0001867","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0006958","count":7}]},{"hash":"1111478732246940230","title":"Methylation-Linked Biosynthesis Across Organelles","description":"The cluster is dominated by GO terms related to methylation (N-terminal peptidyl-serine dimethylation, methylation, rRNA modification) alongside several biosynthetic pathways (ubiquinone, phosphatidylcholine, chlorophyll, vitamin E). This suggests proteins involved in methylation-centric regulation of diverse biosynthetic processes across cellular compartments (mitochondria, plastids, membranes). Some stress-response terms appear as secondary associations but do not define the main theme.","confidence":"Medium","size":26,"edges":279,"triangles":1853,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":5},{"id":"GO:0006656","count":4},{"id":"GO:0016049","count":4},{"id":"GO:0002347","count":3},{"id":"GO:0000154","count":3}]},{"hash":"1032999360184567719","title":"Cartilage/ECM Development","description":"This cluster centers on extracellular matrix organization and connective tissue development, as evidenced by collagen fibril organization, cartilage condensation, and inner ear development. Additional terms point to signaling (ERK cascade, NF-kappaB) and stress/immune responses (hypoxia, virus defense) and pregnancy-related processes, suggesting a broader tissue remodeling and developmental program rather than a single pathway.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0051607","count":4}]},{"hash":"710521263789167662","title":"Membrane lipid biosynthesis and raft organization","description":"Predominant GO terms center on lipid metabolism and membrane-related processes (cholesterol biosynthesis, ether lipid metabolism, membrane raft assembly) and membrane-dependent functions (skin barrier, myelin maintenance). While some terms touch on immune signaling, the shared theme across the cluster appears to be membrane lipid biology, justifying this label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":4},{"id":"GO:0001765","count":3},{"id":"GO:0061436","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1508908891661407","title":"Neural development and immune signaling","description":"This cluster includes neural-focused terms (axon extension, hippocampus development, dopamine response) alongside broad signaling pathways (ERK/MAPK, focal adhesion) and immune signaling terms (T cell receptor signaling, mast cell degranulation). The common thread is signaling cascades governing development and activation across neural and immune contexts, though the mix suggests a broad signaling cluster rather than a single pathway.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045773","count":24},{"id":"GO:0000278","count":24},{"id":"GO:0043366","count":24},{"id":"GO:1903351","count":24},{"id":"GO:0050852","count":24}]},{"hash":"652934655905848881","title":"Mitochondrial energy metabolism and stress response","description":"The cluster is driven by GO terms indicating mitochondrial function, notably mitochondrial translation and the tricarboxylic acid cycle, which together point to energy metabolism within mitochondria. Additional terms reference stress/proteostasis processes (cellular response to cadmium ion, K11-linked ubiquitination), supporting a theme of mitochondrial activity paired with cellular stress responses. Some terms are obsolete or broad (e.g., response to morphine, post-embryonic development), but the core pattern around mitochondrial metabolism and stress resilience justifies the name.","confidence":"Medium","size":26,"edges":17,"triangles":1,"max_degree":3,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0043278","count":6},{"id":"GO:0009097","count":6},{"id":"GO:0019878","count":5},{"id":"GO:0009791","count":5},{"id":"GO:0006099","count":4}]},{"hash":"303083824519709805","title":"Transcription and Signaling Regulators","description":"The top GO terms point to regulators of transcription (negative regulation by RNA Pol II), cell proliferation, various signaling pathways (Rho, BMP, extrinsic apoptotic signaling), endosome organization, and DNA binding, suggesting these proteins act as broad regulatory hubs coordinating transcription, signaling, and cell cycle processes rather than a single pathway. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060244","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007032","count":3},{"id":"GO:0010626","count":2}]},{"hash":"1123015418855822394","title":"Mitochondrial Function and Signaling","description":"The strongest signal is mitochondrial function, with GO terms for protein import into the mitochondrial matrix and regulation of mitochondrial membrane permeability. Additional terms touch on signaling pathways (Smoothened) and cell cycle regulation, suggesting a cluster built around mitochondrial regulation with broader cellular signaling roles. Some terms are obsolete or peripheral (complement activation), indicating imperfect coherence.","confidence":"Medium","size":26,"edges":24,"triangles":16,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0070940","count":3},{"id":"GO:0010867","count":3}]},{"hash":"759516931746851385","title":"Thermogenesis and Cardiovascular GPCR-cAMP Signaling","description":"The cluster is dominated by terms related to diet-induced thermogenesis, heat generation, and temperature response, with supporting GO terms pointing to GPCR-activated adenylate cyclase signaling and membrane potential regulation, plus electron transport chain activity and heart-related processes. This pattern suggests a cohesive module linking energy metabolism and thermogenic responses with cardiovascular signaling and development.","confidence":"Medium","size":26,"edges":30,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0071502","count":20},{"id":"GO:0045777","count":17},{"id":"GO:0022900","count":17}]},{"hash":"628036522784045933","title":"MAPK Regulation and Cell Fate Modulation","description":"The cluster is dominated by terms that negatively regulate MAPK signaling (ERK1/2 cascade, T cell receptor pathway) and involve dephosphorylation of tyrosine and serine residues, with additional enrichment for cell cycle progression, autophagy, and apoptotic signaling. This pattern points to a group of MAPK pathway regulators, likely dual-specificity phosphatases, coordinating cell fate decisions including autophagy and apoptosis; the presence of septation initiation signaling hints at conserved MAPK-driven growth/division roles across organisms.","confidence":"Medium","size":26,"edges":231,"triangles":1540,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050860","count":22},{"id":"GO:0070373","count":22},{"id":"GO:0000200","count":22},{"id":"GO:0007049","count":20},{"id":"GO:0016239","count":20}]},{"hash":"2134639855167937885","title":"Developmental signaling and cytoskeletal remodeling","description":"This cluster centers on developmental processes (embryo implantation, skeletal muscle fiber development, reproductive maturation like sperm capacitation) and signaling pathways (Wnt, GPCR-related signaling) with supporting roles in cytoskeletal organization (actin filament bundle assembly) and regulation (cell cycle, protein ubiquitination). The combination suggests a group of proteins involved in developmental signaling coupled to cytoskeletal dynamics and regulatory processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0007566","count":4},{"id":"GO:0048741","count":4},{"id":"GO:0045714","count":3}]},{"hash":"469049545733614334","title":"Nuclear gene expression and cell division machinery","description":"This cluster centers on nuclear processes and cell division, with key terms like DNA-templated transcription, ribosome biogenesis, mitotic spindle assembly, and microtubule severing. Chromatin modification and cytokinesis-related processes support a theme of coordinated gene expression with mitosis and cell cycle control. Some development and defense-related terms appear, but the dominant signal points to transcriptional programs coupled to cytoskeletal and division machinery.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0051567","count":4},{"id":"GO:0000920","count":4},{"id":"GO:0042254","count":4}]},{"hash":"2134873497533705637","title":"Germline and Gonad Development","description":"Proteins in this cluster show strong links to germline and gonadal processes, including spermatogenesis, cystoblast division, germarium-derived oocyte differentiation, and male gonad development. The presence of meiotic spindle localization and regulation of Wnt signaling reinforces a developmental/germline theme, with other terms likely reflecting general cellular housekeeping. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045732","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0032967","count":2},{"id":"GO:0007282","count":2},{"id":"GO:0030706","count":2}]},{"hash":"180726280967237961","title":"Rho/Rac GTPase signaling and cytoskeleton dynamics","description":"Top terms highlight Rho and Rac GTPase\u2013mediated signaling and actin cytoskeleton organization, plus related cell polarity regulation; a few kinase or insulin signaling terms may reflect pathway cross-talk but still relate to cytoskeletal control. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0048009","count":5},{"id":"GO:0071963","count":4},{"id":"GO:0031532","count":4}]},{"hash":"1548713053330856090","title":"Organ morphogenesis and muscle development","description":"The cluster shows a mix of organ development terms (heart, kidney, cranial skeleton, salivary gland) and muscle-related terms (muscle contraction, sarcomere organization), suggesting a theme of developmental morphogenesis across tissues with a muscle component; additional terms like synapse assembly and Kit signaling reflect broader developmental signaling but do not override the main organogenesis/muscle theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0048701","count":3}]},{"hash":"1285579855564883050","title":"Ubiquitin-Dependent Protein Degradation and Antiviral Immunity","description":"This cluster is centered on ubiquitination-related processes (ubiquitin-dependent proteolysis, autoubiquitination, protein ubiquitination, ERAD, histone catabolic process) and includes innate immune and antiviral defense terms (innate immune response, defense response to virus, TNF signaling). The combination suggests proteins that coordinate substrate tagging for degradation with modulation of immune signaling pathways, particularly antiviral responses. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0036205","count":9},{"id":"GO:0030433","count":9}]},{"hash":"1543484231753093402","title":"Ubiquitination and circadian regulation","description":"The cluster is dominated by ubiquitination-related terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination, K33-linked ubiquitination), indicating involvement in ubiquitin-mediated protein turnover and modification. The presence of a circadian rhythm regulation term suggests a link between ubiquitin pathways and temporal control. Intracellular signal transduction terms likely reflect downstream signaling effects of ubiquitination. Thus the label captures the main, cohesive theme of the cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0000083","count":9},{"id":"GO:0016567","count":8},{"id":"GO:0000209","count":7},{"id":"GO:0042752","count":6}]},{"hash":"1065501551063487863","title":"RNA processing and translation initiation","description":"This group is enriched for RNA-centric processes: formation of the translation preinitiation complex and translation reinitiation point to control at the level of translation, while multiple spliceosome-related terms indicate mRNA processing; regulatory ncRNA-mediated gene silencing and ubiquitination may modulate RNA fate and protein turnover. Together, they suggest a cluster centered on RNA metabolism and gene expression regulation, with links to both splicing and translation initiation, rather than a single narrowly defined function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0006890","count":5},{"id":"GO:0000398","count":5}]},{"hash":"1031887050801821503","title":"Translation and mitochondrial dynamics cluster","description":"The top GO terms center on translation (general and cytoplasmic) and tRNA modification, alongside mitochondrial processes (mitochondrion inheritance and morphogenesis), suggesting a core of protein synthesis machinery linked to mitochondrial maintenance; additional terms (apoptosis, Notch signaling, voltage-gated calcium channel regulation) imply broader signaling roles for some cluster members. I label it to reflect the dominant theme of translation coupled with mitochondrial dynamics, with recognition of multi-functional signaling ties.","confidence":"Medium","size":25,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0086036","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0070584","count":2}]},{"hash":"270161785339882399","title":"Multi-Organ Development and Morphogenesis","description":"The GO terms indicate broad involvement in development and organ morphogenesis across multiple tissues (eye, brain, heart, inner ear, liver, uterus) rather than a single tissue-specific function, with supporting regulatory processes; this suggests the cluster reflects general developmental regulation across organs.","confidence":"High","size":25,"edges":67,"triangles":4,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":15},{"id":"GO:0007507","count":14},{"id":"GO:0043524","count":14},{"id":"GO:0007420","count":14},{"id":"GO:0090103","count":14}]},{"hash":"467737918744552088","title":"Developmental transcriptional regulation","description":"Top terms point to diverse organ development (roof of mouth, pituitary, midbrain, pancreas, lung morphogenesis, ureteric bud branching, peripheral nervous system development) alongside transcriptional regulation by RNA polymerase II, including negative regulation. This suggests a cohesive theme of transcriptional control during embryonic development. Therefore, Developmental transcriptional regulation is an intuitive label that captures both the regulatory function and the developmental context.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060021","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0090009","count":5}]},{"hash":"93641690411128074","title":"Midbrain dopaminergic neuron development","description":"Dominant signals are midbrain dopaminergic neuron differentiation and substantia nigra development (GO:1904948, GO:0021762), with additional but ancillary terms related to ER stress, redox homeostasis, and cell organization, which commonly accompany neural development. Therefore this label is concise and representative of the cluster\u2019s function.","confidence":"High","size":25,"edges":53,"triangles":59,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903206","count":14},{"id":"GO:0034976","count":14},{"id":"GO:0045454","count":11},{"id":"GO:0021762","count":11},{"id":"GO:0008283","count":10}]},{"hash":"1002534581957460559","title":"Collagen ECM Remodeling and Skeletal Morphogenesis","description":"The cluster is dominated by collagen fibril organization and collagen biosynthesis, pointing to extracellular matrix (ECM) assembly. Additional terms highlight mechanical signal responsiveness and ERK signaling, which are often tied to ECM-mediated growth and adaptation. Developmental processes such as endochondral ossification and face morphogenesis further link ECM remodeling to skeletal and craniofacial development. Collectively, these terms suggest a cohesive role in collagen-driven ECM organization influencing skeletal and craniofacial morphogenesis.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":8},{"id":"GO:0032964","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0001558","count":6}]},{"hash":"1464005675057166642","title":"Splicing regulation and RNA processing","description":"This cluster is dominated by GO terms related to regulating mRNA splicing via the spliceosome (positive, negative, and alternative splicing), as well as related RNA processing steps such as mRNA stability in response to stress and regulatory ncRNA\u2013mediated gene silencing, suggesting a cohesive role in RNA maturation and processing control, particularly splicing and translation coupling.","confidence":"High","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0010610","count":15},{"id":"GO:1901407","count":14},{"id":"GO:0000381","count":13}]},{"hash":"1285888600966215536","title":"RNA splicing and translation control","description":"Contains GO terms for spliceosome-mediated mRNA splicing and its regulation, plus translation initiation and reinitiation, including IRES-dependent translation, indicating a shared role in RNA processing and translational control.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":13},{"id":"GO:0002188","count":13},{"id":"GO:0048026","count":10},{"id":"GO:0006378","count":10},{"id":"GO:0075522","count":10}]},{"hash":"775688925588485674","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0045317","count":25},{"id":"GO:0032773","count":25},{"id":"GO:0035249","count":25},{"id":"GO:0035799","count":25},{"id":"GO:0021957","count":25}]},{"hash":"2242427326448935452","title":"Endomembrane Trafficking and Protein Localization","description":"The top GO terms point to vesicle transport within the endomembrane system: ER-to-Golgi and early-to-late endosome transport, endocytic recycling, and processes guiding protein localization to the plasma membrane, plus related trafficking events like Cvt targeting and phagosome-lysosome fusion. While a couple of terms appear as outliers (viral replication, neuronal migration), the predominant signal is intracellular vesicle trafficking and cargo sorting, suggesting a cohesive cluster of endomembrane transport proteins.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045022","count":8},{"id":"GO:0034498","count":8},{"id":"GO:0006888","count":8},{"id":"GO:1903078","count":8},{"id":"GO:0032258","count":8}]},{"hash":"1122328727715183651","title":"DNA Replication and Cell Cycle Machinery","description":"The top GO terms show strong enrichment for mitotic cell cycle, DNA replication, DNA-templated transcription, and DNA repair, indicating a core focus on nuclear processes for genome duplication and maintenance. Other terms appear more peripheral (neural development, signaling) and likely reflect pleiotropy, but the dominant theme is replication and DNA repair/cycle control. ","confidence":"High","size":25,"edges":23,"triangles":5,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":25},{"id":"GO:0006260","count":24},{"id":"GO:0006351","count":22},{"id":"GO:0006281","count":22},{"id":"GO:0045773","count":21}]},{"hash":"2191366148911402716","title":"Detoxification and secondary metabolite biosynthesis","description":"The cluster shows a cohesive theme around processing and neutralizing toxins (response to toxic substance; cellular oxidant detoxification; redox-related terms) alongside biosynthesis and catabolism of secondary metabolites (poly-hydroxybutyrate biosynthetic process; antibiotic biosynthetic process; alkaloid and uracil catabolic processes). These together suggest a microbial metabolic module focused on detoxification and production/digestion of secondary compounds. A few outliers (e.g., a term unrelated to metabolism) appear as annotations noise, but they do not undermine the core theme. ","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0009636","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0042619","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0098869","count":6}]},{"hash":"2194035393141909551","title":"Diverse Substrate Transmembrane Transport","description":"The GO terms point to a common theme of moving various substrates across membranes, including arabinose, galactose, phosphate, nitrite, nitrate, vitamins, and xenobiotics, suggesting a transport-centric cluster. A few outliers like visual learning and neurotransmitter loading may reflect multifunctionality or annotation noise, but the dominant pattern supports membrane transport of diverse substrates.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":3},{"id":"GO:0015751","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015707","count":3}]},{"hash":"312352071955151855","title":"Developmental Signaling and Morphogenesis","description":"The proteins cluster around developmental and morphogenetic signaling: nervous system and organ development, Hedgehog and Robo pathways, ERK cascade regulation, and mechanotransduction, suggesting a coordinated role in tissue patterning. Some terms (e.g., T cell receptor signaling, mitochondrial permeabilization) point to broader signaling and cell fate decisions but do not override the central developmental theme.","confidence":"High","size":25,"edges":135,"triangles":174,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0050852","count":9},{"id":"GO:0071260","count":8},{"id":"GO:0007224","count":8},{"id":"GO:0070374","count":8}]},{"hash":"975802569570881132","title":"Neural development and cell adhesion","description":"This cluster is dominated by GO terms tied to nervous system development, synapse assembly, nerve impulse transmission, and interneuron migration, all supported by strong signals for homophilic/heterophilic cell adhesion and myelination. Although ossification and skeletal development appear among the terms, the strongest and most coherent theme centers on neural development and connectivity, with adhesion likely facilitating synapse formation and neuron positioning. A few bone-related terms may reflect shared developmental pathways but do not define the core function of the cluster.","confidence":"Medium","size":25,"edges":17,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":11},{"id":"GO:0007157","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0007399","count":8}]},{"hash":"1441686022304714047","title":"Dopaminergic neural signaling and cocaine response","description":"The cluster is dominated by neural-related GO terms: dopaminergic synaptic transmission, behavioral response to cocaine, ERK1/ERK2 cascade signaling, and protein phosphorylation, all pointing to dopamine-driven neuronal signaling and reward pathways. Visual perception/learning also appear, suggesting broader neural processing, while a few terms like heart development and macrophage chemotaxis are likely incidental. Overall, the core theme is neural signaling with dopaminergic involvement and cocaine response. ","confidence":"High","size":25,"edges":151,"triangles":376,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":25},{"id":"GO:0019233","count":25},{"id":"GO:0010759","count":25},{"id":"GO:0048148","count":25},{"id":"GO:0071380","count":25}]},{"hash":"932921009565136308","title":"Cartilage condensation and intramembranous ossification","description":"The cluster is driven by skeletal development signals, notably cartilage condensation (GO:0001502) and intramembranous ossification (GO:0001957), indicating roles in bone and cartilage formation. While several immune-related terms (e.g., complement activation) appear, the dominant pattern points to skeletogenesis, with additional regulatory and immune-associated processes that can intersect with bone biology.","confidence":"High","size":25,"edges":112,"triangles":148,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001502","count":7},{"id":"GO:0001867","count":5},{"id":"GO:0051873","count":5},{"id":"GO:0001957","count":5},{"id":"GO:0060355","count":5}]},{"hash":"1229311386638269283","title":"Neural development and signaling","description":"The top GO terms cluster around neural development and signaling pathways: axon extension, hippocampus development, dopamine response, and ERK/MAPK cascade regulation. Also mitotic cell cycle and DNA replication hint at proliferative processes common in developing neural tissue. Immune-related terms like T cell receptor signaling and mast cell degranulation may reflect shared signaling modules (MAPK signaling) rather than a direct immune role here, supporting a cohesive theme of neuronal growth and signaling coordination.","confidence":"Medium","size":25,"edges":22,"triangles":9,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":24},{"id":"GO:0045773","count":23},{"id":"GO:0043366","count":23},{"id":"GO:1903351","count":23},{"id":"GO:0050852","count":23}]},{"hash":"1498826990898990723","title":"Motor neuron development and axon guidance","description":"The set is dominated by GO terms for motor neuron migration in the lateral motor column, peripheral nervous system neuron axonogenesis, and axon guidance, plus cell-matrix adhesion relevant to pathfinding. Supporting terms like dopaminergic neuron differentiation and head development also fit into a broader neural-development theme. This pattern strongly points to proteins involved in neural development, especially motor neuron migration and axon pathfinding.","confidence":"High","size":25,"edges":278,"triangles":1863,"max_degree":24,"top_function":"wound healing","top_go_terms":[{"id":"GO:0097477","count":17},{"id":"GO:0070527","count":17},{"id":"GO:0048936","count":15},{"id":"GO:0008045","count":15},{"id":"GO:0007160","count":15}]},{"hash":"797701580075330865","title":"Rho-GTPase\u2013driven cell migration and adhesion","description":"This cluster\u2019s top GO terms cluster around cytoskeleton remodeling and motility controlled by Rho-family signaling and GTPase activity (cell migration, regulation of Rho signaling, positive regulation of GTPase activity), along with cell adhesion. While a few terms (sterol biosynthesis, symbiont entry into host cell, proteolysis) are more peripheral, the dominant theme ties to actin dynamics, adhesion, and motile behavior driven by Rho/GTPase pathways.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0010765","count":4}]},{"hash":"691177885894497616","title":"T cell activation and cytoskeletal migration regulation","description":"This cluster is dominated by terms related to T cell activation via antigen presentation, and by processes tied to actin cytoskeleton remodeling (lamellipodium assembly, Rho signaling) and integrin regulation, which together point to immune cell activation coupled with migration and adhesion dynamics. Additional terms on hyaluronan metabolism and regulation of leukocyte/microglial migration support a theme of extracellular matrix\u2013driven cell movement and immune cell trafficking, though an outlier term on synaptic vesicle priming is noted. Overall, the set suggests a cohesive function in T cell activation with coordinated cytoskeletal and migratory control.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030212","count":18},{"id":"GO:0002291","count":18},{"id":"GO:0030032","count":18},{"id":"GO:0035023","count":18},{"id":"GO:0060313","count":18}]},{"hash":"1191228007606108657","title":"Cholinergic and Auditory Neuron Signaling","description":"The cluster is dominated by terms related to neuronal excitability and synaptic signaling (membrane depolarization, excitatory postsynaptic potential, Na+/K+ transport) plus auditory functions (sound perception, mechanosensory detection). Acetylcholine receptor signaling and nicotine-related behavioral response further point to cholinergic neurotransmission in auditory/neuronal pathways. A non-neural term (chondrocyte morphogenesis) appears incidental. Overall, it reflects cholinergic, auditory neuron signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051899","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0071805","count":10},{"id":"GO:0035725","count":10},{"id":"GO:0007605","count":9}]},{"hash":"1572895525342285693","title":"Unknown","description":"The listed GO terms span disparate processes (GPCR signaling, telomere maintenance/regulation, Wnt signaling, synaptic plasticity, spindle assembly) with some obsolete annotations, suggesting no single coherent biological function for this cluster. The lack of a unifying theme and the absence of edges/triangles support labeling as Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0032212","count":5},{"id":"GO:1904743","count":5},{"id":"GO:0010745","count":5},{"id":"GO:0070213","count":5}]},{"hash":"407460793062301968","title":"Embryonic development and tissue differentiation","description":"The proteins are linked to diverse developmental differentiation processes across multiple tissues (melanocytes, oligodendrocytes, arterial/endothelial lineages, heart structures, floor plate, and brain boundaries), suggesting a broad role in embryonic tissue specification rather than a single tissue-specific function. The presence of regulatory and hormone-responsive terms further supports a general development/regulatory program driving lineage decisions in early development.","confidence":"Medium","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030318","count":24},{"id":"GO:0014003","count":24},{"id":"GO:0060842","count":24},{"id":"GO:0003236","count":24},{"id":"GO:0003326","count":24}]},{"hash":"2099782592809638339","title":"Inflammation, Coagulation, and ECM Remodeling","description":"The GO terms cluster around innate and adaptive immune activation (complement lectin pathway, adaptive immune response, T cell activation), coagulation and vascular responses (blood coagulation, vasoconstriction), signaling (ERK cascade), and extracellular matrix remodeling (collagen fibril organization, hyaluronan metabolism, calcium-independent cell-matrix adhesion). This pattern suggests a cohesive inflammatory response integrating immunity, coagulation, and ECM dynamics.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0002250","count":10},{"id":"GO:0070374","count":9},{"id":"GO:0007596","count":8},{"id":"GO:0007171","count":8}]},{"hash":"1589860021425107019","title":"Actin Cytoskeleton Remodeling and Epithelial Junctions","description":"The top GO terms point to actin dynamics (filopodium/polym.) and small GTPase signaling, along with adhesion and polarity processes (tight junctions, podosomes, cell spreading, epithelial polarity), suggesting a cohesive role in actin-driven remodeling at adhesion sites and maintenance of epithelial cell polarity.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046847","count":24},{"id":"GO:0034260","count":23},{"id":"GO:0030838","count":23},{"id":"GO:0070830","count":23},{"id":"GO:0051835","count":23}]},{"hash":"758972259536348703","title":"RNA processing and signaling regulation cluster","description":"This cluster centers on terms that indicate regulatory roles across RNA metabolism and signaling rather than a single pathway. It includes regulation of tRNA processing and export, regulation of rRNA processing, and regulation of various signaling pathways (e.g., TGF-beta receptor signaling and glucocorticoid signaling), plus related regulatory processes like protein localization and autophagosome-related substrate localization. The common thread is modulation of cellular functions\u2014gene expression regulation, RNA processing, and intracellular signaling\u2014suggesting these proteins act as a regulatory hub rather than a defined effector pathway.","confidence":"Medium","size":24,"edges":258,"triangles":1664,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030512","count":17},{"id":"GO:0043547","count":13},{"id":"GO:2000232","count":11},{"id":"GO:0031384","count":11},{"id":"GO:0042921","count":11}]},{"hash":"970394001904469167","title":"Immune signaling and cytoskeleton remodeling","description":"The cluster prominently features immune-related processes (B cell receptor signaling, innate immune response) together with cytoskeletal dynamics (Rho signaling, lamellipodium and actin filament bundle assembly), suggesting a theme of immune signaling coupled to actin remodeling. Some terms related to mitotic spindle assembly and hormone secretion appear as less central outliers.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0045087","count":3}]},{"hash":"98953984015243928","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050731","count":12},{"id":"GO:0035264","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0071456","count":12},{"id":"GO:0051028","count":12}]},{"hash":"1437095008754529743","title":"Mitochondrial quality control and ubiquitin-mediated proteostasis","description":"This cluster centers on mitochondrial quality control: mitophagy, regulation of mitochondrial fusion, and ubiquitin-driven protein turnover (ubiquitination/deubiquitination, ERAD) plus aggresome assembly and stress response pathways. The prominent presence of mitophagy and mitochondrial dynamics terms, together with ubiquitin-proteasome\u2013related processes, points to a cohesive role in maintaining mitochondrial integrity and protein homeostasis under stress.","confidence":"High","size":24,"edges":224,"triangles":1263,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016579","count":7},{"id":"GO:0000423","count":6},{"id":"GO:1905366","count":6},{"id":"GO:0010636","count":6}]},{"hash":"647842075721662661","title":"Oxidative Stress Detoxification and Redox Homeostasis","description":"Top GO terms cluster around detoxification of oxidants, redox balance, and protective metabolism (glutathione, toxin catabolism), with supporting processes like nucleotide-excision repair and starvation response. This points to a functional module focused on managing oxidative damage and related cellular homeostasis, justifying a label centered on oxidative stress response and detoxification.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":16},{"id":"GO:0045454","count":11},{"id":"GO:2000255","count":7},{"id":"GO:0040008","count":6},{"id":"GO:0009072","count":6}]},{"hash":"2284387400151293537","title":"RNA processing and translational control","description":"These proteins cluster around post-transcriptional RNA regulation and translation initiation, as shown by GO terms for regulatory ncRNA-mediated silencing, spliceosome-mediated mRNA splicing, stress-related mRNA stability, and multiple aspects of translation initiation/termination (including viral IRES and eIF4F complex assembly). The shared theme is RNA fate decisions and control of protein synthesis at the translation level, rather than transcriptional processes.","confidence":"High","size":24,"edges":269,"triangles":1875,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":19},{"id":"GO:0048026","count":19},{"id":"GO:0010610","count":16},{"id":"GO:0075525","count":15},{"id":"GO:0075522","count":15}]},{"hash":"1078366944624357072","title":"Stress-Responsive Transcription Regulators","description":"The top GO terms point to transcriptional regulation by RNA polymerase II and DNA binding, along with cellular stress responses (oxidant detoxification, hypoxia response, xenobiotic stimulus). This suggests a theme of regulators that modulate transcription in response to stress or external chemicals, with some broader development-related terms appearing as well. Overall, a cohesive label is \"Stress-Responsive Transcription Regulators.\" ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:1903026","count":3},{"id":"GO:0043388","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0071456","count":3}]},{"hash":"1925132218285764040","title":"Immune activation and phagocytosis cluster","description":"The top GO terms consistently point to immune functions: phagocytosis (recognition and engulfment), innate immune response, complement activation, and B cell signaling and activation. Extra cell adhesion terms support immune cell interactions, while a couple terms (paranodal junction assembly, ossification) are tangential; nevertheless the dominant signal is immune activation and phagocytosis.","confidence":"High","size":24,"edges":9,"triangles":1,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030913","count":12},{"id":"GO:0006910","count":10},{"id":"GO:0007156","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0043931","count":7}]},{"hash":"189132662751742385","title":"Neural development and sensory perception","description":"This cluster is dominated by neural and sensory functions: visual perception, axonogenesis, Schwann cell development, sensory perception of pain, and long-term synaptic potentiation point to proteins involved in neural growth, maturation, and synaptic plasticity. The presence of broad developmental terms like multicellular organism development and heart development suggests these proteins participate in general developmental programs, while the mitotic cell cycle and phosphorylation regulation reflect common cellular readiness. The abscisic acid-activated signaling pathway likely represents annotation cross-talk or distant homology rather than a central function. Overall, the set seems to group proteins tied to neural development and sensory processing.","confidence":"Medium","size":24,"edges":11,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0014044","count":9},{"id":"GO:0007275","count":9},{"id":"GO:0007409","count":8}]},{"hash":"2209680057314522321","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The top GO terms emphasize actin filament formation and regulation (actin network formation, stress fiber assembly, pointed-end capping) and processes like neuron migration and regulation of angiogenesis, pointing to cytoskeletal remodeling driving cell movement as the cluster\u2019s core function. Some transport-related terms appear but are likely secondary to membrane\u2013cytoskeleton interactions. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0043252","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0016525","count":3}]},{"hash":"1446201890211715224","title":"Cell adhesion and migration","description":"This cluster is driven by GO terms about cell movement and adhesion, including leukocyte migration, smooth muscle cell migration, and integrin- and matrix-mediated cell-cell adhesion, pointing to a shared role in cell trafficking and tissue remodeling. Some terms are peripheral or obsolete (aging, oxidation-reduction, some developmental terms), but the core signal centers on adhesion and migration in development and inflammatory contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0014909","count":6},{"id":"GO:0007568","count":5},{"id":"GO:0002523","count":5},{"id":"GO:0007161","count":5}]},{"hash":"1675338509377464082","title":"Rho Signaling in Neuronal Receptor Clustering and Behavior","description":"The top terms cluster around regulation of Rho protein signaling and its role in receptor clustering and neural development, with associated behaviors (grooming, vocalization). This combination suggests a module where Rho-driven cytoskeletal dynamics and receptor organization influence neural development and behavior, justifying a label focused on Rho signaling in neuronal receptor clustering and behavior.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0070433","count":10},{"id":"GO:2000821","count":9},{"id":"GO:0043113","count":9},{"id":"GO:0006470","count":9}]},{"hash":"2241566946768371938","title":"Growth signaling and cytoskeletal dynamics","description":"This cluster centers on signaling pathways that regulate cell growth (growth hormone signaling, regulation of cell growth, TGF-\u03b2 response, STAT regulation) and on cytoskeletal remodeling (spindle and podosome assembly), with supporting links to protein turnover (ubiquitination and proteolysis) and differentiation. The mix suggests a theme of growth control coupled with dynamic cellular architecture rather than a single highly specific function. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0042518","count":10},{"id":"GO:0060396","count":10},{"id":"GO:0001558","count":10},{"id":"GO:0070306","count":7},{"id":"GO:0071560","count":7}]},{"hash":"742935867041181608","title":"Neuronal Synaptic Signaling and Lipid Metabolism","description":"The cluster\u2019s prominent GO terms point to neuronal signaling and synaptic activity (brain development, excitatory postsynaptic potential, regulation of synaptic depression) and to lipid-mediated signaling and metabolism (diacylglycerol metabolism, phytosphingosine metabolism, lipid phosphorylation), with calcium and phosphorylation pathways further linking signaling and regulation. This combination suggests a cohesive theme around synaptic function governed by lipid signaling and phosphorylation events, rather than a single non-neuronal process.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0046834","count":3},{"id":"GO:1900452","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0006671","count":3}]},{"hash":"1261552716686873805","title":"Dopaminergic Synaptic Transmission and Cocaine Response","description":"This cluster is dominated by terms tied to dopamine signaling and addiction-related neural activity, including dopaminergic synaptic transmission, behavioral response to cocaine, and ERK cascade regulation, with supporting terms that touch on cardiovascular regulation and broader brain functions (visual perception/learning). The common thread appears to be neural signaling pathways related to dopamine and drug-response behaviors, though a few peripheral terms are present.","confidence":"Medium","size":24,"edges":60,"triangles":4,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0007601","count":13},{"id":"GO:0008542","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0071380","count":13}]},{"hash":"260243163474043873","title":"GTPase-regulated immune signaling and cytoskeleton","description":"This cluster is dominated by GO terms for regulation of Rho/Rac/Ras signaling and small GTPase\u2013mediated pathways, with lamellipodium assembly implying actin remodeling. It also includes immune cell differentiation and cytokine signaling (B cells, NK T cells, IL-4, IL-7), pointing to a cohesive theme where small GTPases coordinate immune signaling and cytoskeletal dynamics during immune cell migration and maturation.","confidence":"High","size":24,"edges":22,"triangles":2,"max_degree":20,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":22},{"id":"GO:0046580","count":20},{"id":"GO:0002344","count":19},{"id":"GO:1904140","count":18},{"id":"GO:0030032","count":18}]},{"hash":"1522293071194893136","title":"Cell Cycle Control and Proliferation","description":"This cluster is dominated by GO terms tied to cell cycle regulation and transcription during division (G1/S and G2/M transitions, spindle pole separation, re-entry into the mitotic cycle, DNA-templated transcription, and regulation of CDK activity). The presence of mammary gland epithelial cell proliferation and insulin signaling regulation suggests growth-promoting, proliferative contexts. Overall, the proteins appear centered on mitotic control and associated transcriptional activity.","confidence":"High","size":24,"edges":22,"triangles":3,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046626","count":20},{"id":"GO:0010696","count":19},{"id":"GO:0006351","count":19},{"id":"GO:0033598","count":19},{"id":"GO:0000320","count":19}]},{"hash":"86429229684963745","title":"Neural development and axon guidance","description":"The top terms largely cluster around nervous system development and axon-related processes: neuron projection development, axonal fasciculation, and myelination, with Rho signaling indicating cytoskeletal regulation in growth cones. While there are a few skeletal/immune terms present, the dominant theme centers on neural differentiation and axon organization, suggesting this cluster reflects proteins involved in nervous system development and wiring.","confidence":"Medium","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050830","count":10},{"id":"GO:0001501","count":9},{"id":"GO:0070306","count":9},{"id":"GO:0031175","count":9},{"id":"GO:0035023","count":9}]},{"hash":"1011919059602904875","title":"Endosomal Transport and Recycling","description":"The cluster is dominated by GO terms describing endosomal routing and membrane trafficking, including early-to-late endosome transport, endosome-to-lysosome and Golgi-to-plasma membrane trafficking, and endocytic recycling. While a few terms touch on unrelated processes, the core signal is intracellular trafficking within the endomembrane system, justifying a label focused on endosomal transport and recycling.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":5},{"id":"GO:0045022","count":4},{"id":"GO:0008333","count":4},{"id":"GO:0006893","count":4},{"id":"GO:0031384","count":3}]},{"hash":"449778267891186008","title":"Ribosome Biogenesis and Translation with Cell Cycle","description":"Dominated by translation and ribosome biogenesis terms, with several cell cycle and division signals, suggesting a core focus on protein synthesis and proliferation. Other terms point to organelle dynamics (mitochondrial fission) and division-related processes (septum assembly), while stress/immune responses (interferon-\u03b1, antibiotic) and a GABAergic synaptic term appear as peripheral associations. Overall, the cluster centers on ribosome-related functions and cell-cycle progression, with ancillary pathways.","confidence":"Medium","size":24,"edges":201,"triangles":855,"max_degree":23,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0051301","count":6},{"id":"GO:0035455","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0045071","count":6}]},{"hash":"105123226719498758","title":"Negative regulation of cytoskeleton and endothelial migration","description":"Based on the top GO terms, this cluster centers on suppressing actin cytoskeleton remodeling (stress fibers, Rho/Rac signaling, focal adhesions) and on processes linked to endothelial cell migration and angiogenesis (tube formation, sprouting). The mixture of cytoskeletal regulation terms with angiogenesis-related terms suggests a cohesive theme of inhibiting endothelial movement and vessel remodeling, with some related signaling crosstalk (e.g., PKC). ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0035024","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0051895","count":3}]},{"hash":"432255467964585738","title":"Unknown","description":"The top GO terms span immune signaling (GM-CSF stimulus, B cell homeostasis), development (heart development, angiogenesis), vesicle trafficking (endosomal transport, dense core granule exocytosis), and extracellular matrix processes (hyaluronan metabolism), with an odd term for sensory perception of sound and an obsolete GPCR pathway. There isn\u2019t a single coherent functional theme tying these proteins together, so a concise, representative label cannot be assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0097011","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0001525","count":3}]},{"hash":"1291922646677835034","title":"Unknown","description":"The top GO terms point to disparate processes: Rap-mediated signal transduction, apoptosis, viral translation initiation, multiple developmental processes (salivary gland, brain, epidermis), and hormone biosynthesis regulation (progesterone, cortisol), plus thrombin receptor signaling. This heterogeneity makes it hard to assign a concise, representative function to the whole cluster, so Unknown with no confidence.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032486","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0007431","count":2},{"id":"GO:0007420","count":2}]},{"hash":"533356065167284732","title":"Cortical neurogenesis and mitotic spindle dynamics","description":"The cluster is enriched for terms tied to cerebral cortex development, interkinetic nuclear migration, mitotic spindle organization, astral microtubule dynamics, and neuronal wiring (axonal fasciculation and cell-cell adhesion), pointing to a coherent role in neural progenitor division and cortical development.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":3},{"id":"GO:0035046","count":3},{"id":"GO:0007091","count":3},{"id":"GO:0022027","count":3},{"id":"GO:0060236","count":3}]},{"hash":"1944420038552625733","title":"Neural crest migration and axon guidance","description":"These proteins are enriched for neural development terms centered on axon pathfinding and neural crest migration, including axonal fasciculation, semaphorin-plexin signaling in axon guidance, trigeminal nerve organization, branchiomotor neuron axon guidance, and sympathetic neuron projection/guidance. The skeletal system development term reflects crest derivatives. Collectively, the theme is neural crest\u2013driven neural connectivity and axon guidance.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":11},{"id":"GO:0014068","count":11},{"id":"GO:0001501","count":10},{"id":"GO:0051965","count":10},{"id":"GO:0036486","count":9}]},{"hash":"149561114571478581","title":"Unknown","description":"The GO terms span immune regulation, development, neural/behavioral responses, and xenobiotic processing, with no evident single shared function and no interactions among proteins (edges 0). Because there isn\u2019t a cohesive theme tying the terms together, a specific, descriptive label isn\u2019t justifiable.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":3},{"id":"GO:0048294","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0043278","count":2}]},{"hash":"969469990718273408","title":"Cardiac contraction and sarcomere organization with heart-rate regulation","description":"Dominant GO terms center on cardiac muscle contraction, sarcomere organization, and heart-rate regulation by epinephrine, pointing to a cluster of proteins involved in cardiac muscle structure and function, especially sarcomere assembly and modulation of heart rate. The presence of vascular smooth muscle regulation terms supports a broader muscular regulatory theme, while incidental terms like visual perception and nervous system development may reflect annotation noise. Overall, the cluster appears to reflect cardiac muscle biology rather than non-muscle processes. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":13},{"id":"GO:1904706","count":11},{"id":"GO:0060298","count":11},{"id":"GO:0045214","count":11},{"id":"GO:1904753","count":11}]},{"hash":"803691444243293110","title":"Ubiquitin-Dependent Muscle Protein Turnover","description":"Dominant ubiquitin-mediated proteolysis signals (GO:0042787, GO:1990390) alongside muscle-structure terms (sarcomere organization, skeletal muscle fiber development) suggest a role for ubiquitin-driven protein turnover in muscle. The circadian rhythm regulation term further implies rhythmic control of proteostasis in muscle. Some outliers (immune and development terms) may reflect annotation noise, but the core theme ties ubiquitin-dependent turnover to muscle-related processes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0042752","count":12},{"id":"GO:0045214","count":11},{"id":"GO:1990390","count":10},{"id":"GO:0048294","count":10}]},{"hash":"457694959448550013","title":"Neural development and axon guidance signaling","description":"Based on the top GO terms, the cluster is enriched for nervous system development, neurogenesis, and axon guidance pathways (Smoothened hedgehog signaling and Roundabout signaling), with supporting evidence from clustering of voltage-gated sodium channels. While a few terms touch on broader developmental or immune contexts, the dominant theme is neural development and signaling guiding neuronal differentiation and connectivity, justifying this label.","confidence":"Medium","size":23,"edges":195,"triangles":818,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007224","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0001822","count":8}]},{"hash":"1213922748157911612","title":"Cytosolic ribosome biogenesis and translation","description":"The top GO terms overwhelmingly point to ribosome production and protein synthesis: ribosome biogenesis, translation, cytosolic ribosome assembly, cytoplasmic translation, and formation of the translation preinitiation complex. Supporting terms about LSU-rRNA maturation fit with ribosome assembly, while DNA-templated transcription and cell division reflect linked cellular growth processes. Overall, the cluster corresponds to the cytosolic ribosome biogenesis and translation machinery.","confidence":"High","size":23,"edges":71,"triangles":124,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":10},{"id":"GO:0006412","count":7},{"id":"GO:0000463","count":5},{"id":"GO:0046677","count":4},{"id":"GO:0051301","count":4}]},{"hash":"113241798710198463","title":"CNS neurodevelopment and cell fate specification","description":"This cluster centers on neural development and fate decisions, including interneuron differentiation (GABAergic), motor neuron and oligodendrocyte specification, floor plate and primitive streak involvement, and transcriptional regulation by RNA polymerase II. Some non-CNS development terms appear but the dominant theme is CNS patterning and neural/glial differentiation.","confidence":"High","size":23,"edges":247,"triangles":1652,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0060163","count":10},{"id":"GO:0021892","count":10},{"id":"GO:0031018","count":10},{"id":"GO:0021520","count":10}]},{"hash":"110365321983339351","title":"Reproductive development and vitamin/prostaglandin signaling","description":"The cluster is enriched for terms tied to developmental and reproductive biology, including uterus development, maternal processes in parturition, and digestive tract development, along with key vitamin- and hormone-related pathways such as 9-cis-retinoic acid biosynthesis and vitamin D response, as well as prostaglandin biosynthesis. These recurring themes suggest a coherent theme around developmental regulation modulated by vitamin/hormone signaling, with some accompanying metabolic processes (methylation, xenobiotic catabolism) that are less central. ","confidence":"Medium","size":23,"edges":89,"triangles":183,"max_degree":15,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0033280","count":13},{"id":"GO:0060137","count":13},{"id":"GO:0048565","count":12},{"id":"GO:0042904","count":12},{"id":"GO:0046232","count":12}]},{"hash":"2080996022019990175","title":"Cell Cycle and Stress-Response Signaling","description":"The top GO terms cluster around mitotic cell cycle and cell division, plus several cellular stress responses (hypoxia, cadmium exposure, ER stress translation) and proteostasis (ubiquitination). Also included are hormone signaling and differentiation processes that connect to growth and cellular responses. Overall, the group appears to reflect coordinated regulation of cell proliferation and stress-responsive signaling pathways.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0006626","count":3}]},{"hash":"178213136846038393","title":"Immune and vascular development","description":"The cluster is enriched for innate immune terms (defense response to Gram-positive bacterium; response to lipopolysaccharide) alongside vascular/developmental processes (endothelial barrier establishment, blood coagulation, smooth muscle migration, biomineral tissue development, growth, midbrain development), suggesting proteins involved in coordinating immune responses with vascular remodeling and tissue development.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0032496","count":7},{"id":"GO:0035264","count":7},{"id":"GO:0030901","count":7}]},{"hash":"1137064361969504541","title":"Circadian-regulated Developmental Transcription","description":"This cluster is dominated by circadian rhythm regulation and DNA-templated transcription terms, pointing to transcriptional control tied to circadian timing. The presence of multiple developmental processes (heart, hindlimb, habenula, gonad morphogenesis) and estrogen receptor signaling suggests these genes participate in circadian-influenced transcriptional programs that guide development. Overall, the common theme is circadian-linked transcription in developmental contexts.","confidence":"High","size":23,"edges":155,"triangles":488,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042753","count":19},{"id":"GO:0032922","count":19},{"id":"GO:0006351","count":19},{"id":"GO:0043433","count":18},{"id":"GO:0007507","count":17}]},{"hash":"558541391833399569","title":"Developmental Transcriptional Regulation in Brain and Heart","description":"This cluster centers on developmental processes (brain, heart, substantia nigra) and transcriptional/epigenetic control (RNA Pol II regulation, transcription initiation, histone acetylation, and nuclear protein localization), suggesting coordinated regulation of gene expression during neural and cardiac development, with occasional immune/memory-related annotations.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0000122","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0021762","count":3}]},{"hash":"1622407831005652289","title":"Vacuolar amino acid transporters","description":"The cluster is dominated by GO terms for transmembrane transport of a range of amino acids (proline, serine, arginine, alanine, lysine, glutamine) and specifically import/export into vacuoles, suggesting a shared function as vacuolar amino acid transporters. Some unrelated terms like lung development or root cap development appear in the top terms but do not outweigh the clear amino acid/vacuolar transport signal.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":4},{"id":"GO:0030324","count":3},{"id":"GO:0090516","count":3},{"id":"GO:0090452","count":3},{"id":"GO:0061402","count":3}]},{"hash":"179815068181803543","title":"Pigment and retinoid metabolism","description":"The top terms cluster around pigment biosynthesis (melanin) and retinoid/vitamin pathways (retinol and retinal metabolism), with additional related cofactor biosynthesis (tetrahydrobiopterin). A few terms (antibiotic biosynthesis/response, grooming regulation, receptor clustering) are less cohesive but likely represent peripheral annotations or secondary functions. Overall, the dominant theme is pigment and retinoid metabolism, justifying this label. ","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042572","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0042574","count":6},{"id":"GO:0008209","count":6}]},{"hash":"677768657331239546","title":"Neural development and synaptic signaling","description":"The top GO terms emphasize brain development and neuronal-synaptic processes, including regulation of synaptic vesicle exocytosis and axon guidance pathways (Roundabout and Hedgehog-related). Coupled with signaling regulation (GTPase and protein kinase activity) and protein interactions, the cluster centers on neural development and synaptic signaling machinery.","confidence":"High","size":23,"edges":68,"triangles":48,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051291","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0010796","count":5}]},{"hash":"1390396458070479003","title":"Vacuolar and Mitochondrial Ion Homeostasis","description":"The cluster includes multiple GO terms centered on ion transport (sodium, copper), vacuolar processes (organization, acidification, protein targeting to vacuole), and energy-related terms (proton transmembrane transport, proton motive force-driven ATP synthesis, TCA cycle), suggesting coordinated ion homeostasis and trafficking across vacuolar and mitochondrial compartments linked to energy metabolism.","confidence":"Medium","size":23,"edges":251,"triangles":1729,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":3},{"id":"GO:0007033","count":2},{"id":"GO:0006878","count":2},{"id":"GO:0042777","count":2},{"id":"GO:0007035","count":2}]},{"hash":"786496498536345269","title":"Cardiovascular development and oxidative stress response","description":"The top GO terms cluster around responses to hypoxia and oxidative stress (hypoxia response, hydrogen peroxide detox and catabolism, response to toxic substances) alongside heart development, with ancillary signals from fatty acid response and erythrocyte maturation. This pattern points to a module of proteins coordinating heart development with oxidative stress handling, oxygen sensing, and detoxification, rather than a purely metabolic or structural cluster. The presence of migration regulation hints at remodeling processes typical of cardiovascular development.","confidence":"Medium","size":23,"edges":12,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":7},{"id":"GO:0009636","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0098869","count":6},{"id":"GO:0042744","count":6}]},{"hash":"1487531836755871839","title":"Actin-driven cell spreading and filopodial motility","description":"The top GO terms cluster around actin cytoskeleton remodeling, filopodium and ruffle assembly, actin polymerization-dependent motility, and small GTPase signaling, with links to cell adhesion and signaling pathways like insulin receptor signaling. This points to proteins coordinating actin dynamics to drive spreading, filopodium formation, and motile behavior, often relevant to immune cell movement.","confidence":"High","size":23,"edges":31,"triangles":6,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031532","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0046847","count":7},{"id":"GO:1900026","count":7},{"id":"GO:0007264","count":7}]},{"hash":"968785331036504110","title":"DNA Replication and Repair","description":"This cluster is dominated by GO terms tied to DNA replication (DNA replication, unwinding, primer synthesis) and DNA damage response/repair (nucleotide-excision repair, SOS response, UV protection), indicating a coherent theme of genome duplication and repair mechanisms; a few outliers like mRNA decay and hair cell differentiation are present but do not override the core signal.","confidence":"High","size":23,"edges":120,"triangles":274,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0006268","count":8},{"id":"GO:0009432","count":6},{"id":"GO:0006269","count":6},{"id":"GO:0009650","count":5}]},{"hash":"695196207652856781","title":"Cell Signaling Regulation","description":"The proteins in this cluster are enriched for terms related to regulation and signaling, including GPCR signaling, MAPK-related signaling, Rho signal transduction, and neurotransmitter secretion, along with post-translational modification and protein ubiquitination. While the specific pathways vary (neural signaling, development, and modification processes), the unifying theme is modulation of cellular signaling rather than a single pathway, justifying a label around \"cell signaling regulation.\"","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070212","count":6},{"id":"GO:0007269","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0031666","count":6},{"id":"GO:0032212","count":5}]},{"hash":"739843373728579369","title":"Plant cell wall biosynthesis and glycosylation","description":"The cluster is dominated by GO terms tied to plant cell wall construction and modification, including glucuronoxylan biosynthesis, plant-type secondary cell wall biogenesis, and cell wall organization, along with root hair development and hydroxyproline-rich protein glycosylation. These consistently point to a cohesive program of cell wall assembly and protein glycosylation in plants, with a few related terms (e.g., infection structure) that may reflect pathogen interactions with the wall rather than core function. ","confidence":"High","size":23,"edges":93,"triangles":156,"max_degree":20,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0010417","count":4},{"id":"GO:0009834","count":4},{"id":"GO:0050650","count":4},{"id":"GO:0071555","count":4}]},{"hash":"2258994134209788023","title":"Developmental transcriptional regulation","description":"This cluster appears enriched for transcriptional regulation terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) along with diverse developmental processes (spermatid nucleus differentiation, endocardial cushion morphogenesis, otic vesicle formation, cornea development, myoblast differentiation). The combination suggests proteins revolving around controlling gene expression during development and differentiation, with some non-core metabolic or immune-related terms as minor outliers.","confidence":"High","size":23,"edges":30,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007289","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0090090","count":3},{"id":"GO:0003203","count":3}]},{"hash":"392152649836085958","title":"Cardiac GPCR-cAMP signaling module","description":"The top GO terms are dominated by heart development together with strong signals for GPCR-mediated pathways, including adenylate cyclase-activating adrenergic receptor signaling, GTPase activity regulation, and prostaglandin responses. This points to a cohesive cluster of proteins involved in cardiac development and neurohumoral signaling via GPCR-cAMP pathways, with additional reflections of stress/temperature and drug-response signaling that can act downstream of these pathways. Overall, a cardiac signaling module is most representative of the cluster.","confidence":"Medium","size":23,"edges":68,"triangles":52,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0043547","count":22},{"id":"GO:0002024","count":21},{"id":"GO:0010759","count":21}]},{"hash":"1031615216392513077","title":"Thermoregulation and Cardiovascular Signaling","description":"This cluster combines temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus) with cardiovascular functions (regulation of blood pressure, heart development) and signaling pathways (adenylate cyclase-activating GPCR signaling, activation of adenylate cyclase, membrane potential regulation). The electron transport chain and salivation terms suggest underlying energy metabolism and autonomic control, respectively. Together, these terms point to a coordinated module of thermoregulatory and cardiovascular/autonomic signaling with metabolic support.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0042391","count":9},{"id":"GO:0045777","count":9}]},{"hash":"1680136307701059441","title":"Developmental cytokine signaling across tissues","description":"The proteins are enriched for cytokine production (mast cell cytokine production, GM-CSF production) and developmental processes across multiple tissues (lung morphogenesis, axonogenesis, cartilage condensation), along with hormonal signaling (estrogen response, growth hormone receptor signaling). This suggests a theme of cross-tissue signaling coordinating development and immune-related functions, though some terms are more general, so the label is a best-fit with Medium confidence.","confidence":"Medium","size":23,"edges":235,"triangles":1442,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":23},{"id":"GO:0060502","count":23},{"id":"GO:0007409","count":23},{"id":"GO:0070926","count":23},{"id":"GO:0045425","count":23}]},{"hash":"1941684467307462649","title":"Immune signaling and metabolism cluster","description":"The term frequencies are dominated by immune-related pathways: innate and adaptive immune responses, B cell receptor signaling, and interleukin-2 production, along with cell\u2013cell adhesion terms that support immune cell interactions. Metabolic terms such as insulin receptor signaling and glucose metabolism appear as well, suggesting metabolic regulation linked to immune signaling or possible annotation overlap; overall, the cluster seems primarily driven by immune signaling networks, with metabolism as a secondary aspect. Cerebellum morphogenesis is present but does not define the core theme of the cluster.","confidence":"Medium","size":23,"edges":17,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008286","count":6},{"id":"GO:0007156","count":5},{"id":"GO:0010641","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0006006","count":5}]},{"hash":"1422350963206484316","title":"Developmental Signaling and Differentiation Regulators","description":"The cluster\u2019s top GO terms center on signaling pathways (VEGF, BMP, Wnt) and transcriptionally regulated differentiation processes across multiple tissues (chondrocytes, keratinocytes, hair follicles) plus neural and endothelial components (synapse assembly, presynaptic membranes, endothelial chemotaxis). This pattern suggests a general role in coordinating development and cell fate decisions rather than a single pathway, justifying a label that emphasizes developmental signaling and differentiation regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0032331","count":10},{"id":"GO:1900748","count":10},{"id":"GO:0044332","count":8},{"id":"GO:2001027","count":8},{"id":"GO:0051965","count":8}]},{"hash":"1351728031728630707","title":"Cardiovascular GPCR Signaling and Metabolic Regulation","description":"The cluster is enriched for GO terms related to GPCR signaling affecting blood pressure, dopamine/prostaglandin pathways, Rho signaling, and responses to temperature and pain, plus energy metabolism via the electron transport chain. This suggests a common theme of signaling networks that regulate cardiovascular function and metabolic responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0035025","count":6},{"id":"GO:0007191","count":6}]},{"hash":"714694252194334037","title":"Mitotic progression and APC-mediated proteolysis","description":"This cluster is enriched for terms related to mitosis and protein degradation, including mitotic cell cycle, cell division, and anaphase-promoting complex-dependent catabolic process, along with K11-linked ubiquitination, pointing to APC-driven proteolysis as a central mechanism. While there are hints of transcriptional activity and stress responses (cadmium ion), the strongest shared signal is regulation of mitosis via ubiquitin-mediated proteolysis. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0071276","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0031145","count":4}]},{"hash":"618819144266162169","title":"Neural development and synapse assembly","description":"This cluster is dominated by GO terms tied to neural connectivity and cell adhesion\u2014heterophilic cell-cell adhesion, axonal fasciculation, and regulation/positive regulation of synapse assembly\u2014along with myelination and otolith morphogenesis, indicating nervous system development and sensory organ formation. Immune-related terms are present but appear less central. Overall, the strongest theme is neural development and synapse formation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007413","count":10},{"id":"GO:0045087","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0046718","count":9}]},{"hash":"711823555031066702","title":"Neural development and inflammatory signaling","description":"This cluster combines brain development terms (forebrain and brain development) with inflammatory signaling pathways (NF-kappaB, ERK cascade, Rho signaling) and inflammatory response, plus related signaling activities (peptidyl-threonine phosphorylation) and mechanical stimulus response. The shared theme appears to be proteins involved in neural development that also participate in immune and signaling pathways, rather than a single clean pathway, supporting a mixed but cohesive functional theme. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007568","count":3}]},{"hash":"2250244827214688349","title":"Neuronal development with RNA processing and immune signaling","description":"The cluster shows a shared theme around neuronal development and synaptic plasticity, with strong signals for RNA processing and translation regulation (spliceosome, translation initiation, cap-independent initiation) alongside innate immune terms (cellular response to lipopolysaccharide, innate immune response) and mitophagy regulation. This suggests a module where neuronal development and plasticity are coordinated with RNA-level gene expression control and immune signaling pathways, possibly reflecting neurons\u2019 responses to inflammatory or stress signals.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048666","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0060368","count":2},{"id":"GO:0048172","count":2}]},{"hash":"1892016815938298712","title":"RNA Splicing and Translation Regulation","description":"The cluster is dominated by GO terms for mRNA processing and splicing (spliceosome-mediated splicing, alternative splicing, and regulation of splicing), along with regulation of mRNA stability and ncRNA-mediated gene silencing, plus assembly of the translation initiation machinery, pointing to a cohesive RNA maturation and translation-control module.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":19},{"id":"GO:0031047","count":11},{"id":"GO:0045292","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0006378","count":11}]},{"hash":"1872016099569171284","title":"GTPase-driven immune signaling and cell migration","description":"This cluster centers on signaling pathways mediated by small GTPases (e.g., Rac) that regulate cytoskeletal dynamics, cell migration and adhesion, and it also includes immune-related functions such as B cell maturation and interleukin-7 response. The presence of insulin signaling and growth hormone secretion terms suggests broader kinase-driven signal transduction. Overall, the common theme is GTPase-dependent signaling coordinating immune cell behavior and movement.","confidence":"Medium","size":22,"edges":15,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060124","count":5},{"id":"GO:0098761","count":5},{"id":"GO:0035020","count":5},{"id":"GO:0002344","count":5},{"id":"GO:1904424","count":5}]},{"hash":"73446339085569225","title":"Tissue development and remodeling","description":"These proteins cluster around developmental and remodeling processes: heart and gland morphogenesis, epithelial polarity, cell adhesion and spreading, and regulation of GTPase signaling, all of which are key to tissue morphogenesis and cytoskeletal dynamics. Apoptosis and engulfment also fit into tissue remodeling, while long-term synaptic potentiation may reflect neural plasticity aspects of remodeling. Overall, the shared theme is development and structural remodeling at the cellular level.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0043652","count":4}]},{"hash":"984001859789495210","title":"Endothelial tight junctions and actin remodeling","description":"The cluster is enriched for terms related to establishing the endothelial barrier, tight junction assembly, and actin cytoskeleton organization (including filopodium/podosome assembly and actomyosin structure), indicating a common theme of endothelial junction formation and cytoskeletal dynamics. Some growth factor and immune signaling terms appear, likely reflecting shared signaling networks that regulate the cytoskeleton rather than a separate pathway, so the core signal remains endothelial junction and actin remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0061028","count":5},{"id":"GO:0070830","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0046847","count":5}]},{"hash":"1048548185213453247","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms involving ubiquitination and ubiquitin-dependent proteolysis (polyubiquitination, K48- and K63-linked ubiquitination, ubiquitin-dependent protein catabolic process), pointing to a core role in tagging proteins for degradation and regulating turnover. Supporting signals relate to broader ubiquitin-mediated regulation, including autoubiquitination and links to cell-cycle control, stress signaling, and host interactions (e.g., oxidative stress-induced neuronal apoptotic signaling, vitamin D response, and suppression of viral release). Overall, the common theme is ubiquitin-mediated protein regulation and degradation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0000083","count":6},{"id":"GO:0070936","count":6},{"id":"GO:0070534","count":6},{"id":"GO:1903378","count":5}]},{"hash":"732794336969707064","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000472","count":5},{"id":"GO:0000480","count":5},{"id":"GO:0006890","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0000447","count":4}]},{"hash":"1374668999182056393","title":"Chromatin remodeling and transcription regulation","description":"This cluster is defined by GO terms centered on how chromatin state influences transcription, including negative regulation of transcription by RNA polymerase II, DNA-templated transcription, and chromatin remodeling with nucleosome density/positioning. The common theme is epigenetic control of gene expression through nucleosome dynamics and histone modifications, with a few obsolete terms that do not alter the core interpretation.","confidence":"High","size":22,"edges":59,"triangles":62,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0060303","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0016584","count":5},{"id":"GO:0043044","count":5}]},{"hash":"1883179760490961431","title":"Developmental growth and neuronal signaling","description":"The cluster shows enrichment in developmental processes such as brain development and multicellular growth, along with cell cycle and trafficking activities (cell division, mitotic cell cycle, regulation of synaptic vesicle exocytosis, endosomal regulation, ubiquitination). This combination points to proteins involved in developmental growth with neuronal signaling and intracellular transport, rather than a single specific pathway.","confidence":"Medium","size":22,"edges":75,"triangles":58,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0007420","count":5},{"id":"GO:0000278","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0000747","count":4}]},{"hash":"834659561278705656","title":"Adaptive and innate immune signaling","description":"The cluster is dominated by immune-related terms: positive regulation of T cell proliferation, T cell costimulation, adaptive immune response, innate immune response, and complement activation, along with phagocytosis recognition, suggesting a coherent set involved in both adaptive and innate immune signaling and effector functions. A few outlier terms (ion transporter regulation, nerve impulse transmission, lens morphogenesis) are likely ancillary or annotation-related and do not obscure the main immune theme.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":7},{"id":"GO:0031295","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0046007","count":6},{"id":"GO:0002250","count":6}]},{"hash":"561057993760544890","title":"Chromatin organization and transcription regulation","description":"These proteins show a strong emphasis on chromatin-related processes: heterochromatin formation, chromatin localization, CENP-A\u2013containing chromatin assembly, and regulation of transcription by RNA polymerase II, with some associated differentiation terms. The dominant theme is chromatin organization and transcription control, making this label representative of the cluster.","confidence":"High","size":22,"edges":75,"triangles":101,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030466","count":10},{"id":"GO:0051290","count":8},{"id":"GO:0071169","count":8},{"id":"GO:0042766","count":7}]},{"hash":"1822338399442401228","title":"Plant detoxification and strigolactone biosynthesis","description":"This cluster combines plant-specific metabolic and detox pathways, highlighted by strigolactone biosynthesis and secondary shoot formation, along with detox responses (response to toxic substance, cellular oxidant detoxification) and diverse catabolic processes. Together, these terms point to a module linking detoxification and hormone-related secondary metabolism in plants.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0009636","count":9},{"id":"GO:0055114","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0019380","count":7},{"id":"GO:0046839","count":7}]},{"hash":"2159937003162561609","title":"Unknown","description":"The GO terms span both developmental processes (uterus and digestive tract development) and diverse metabolic pathways (retinoic acid and prostaglandin biosynthesis, methylation, xenobiotic/carbazole/coumarin metabolism) with an immune note (response to nematode). There isn\u2019t a single coherent function or pathway tying these proteins together, so a concise, accurate label isn\u2019t available.","confidence":"","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":19},{"id":"GO:0048565","count":18},{"id":"GO:0042904","count":18},{"id":"GO:0046232","count":18},{"id":"GO:0001516","count":18}]},{"hash":"895906313672999113","title":"Lectin- and Fc receptor\u2013mediated immune signaling","description":"Reason: The top terms point to innate immune recognition and signaling through lectin pathways and Fc receptors (e.g., lectin pathway activation, C-type lectin receptor signaling, Fc-gamma receptor signaling, NK cell regulation). A couple of development-related terms appear but the dominant theme is immune receptor\u2013mediated signaling, justifying this label.","confidence":"Medium","size":22,"edges":229,"triangles":1501,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":20},{"id":"GO:2000502","count":14},{"id":"GO:0010572","count":13},{"id":"GO:0001502","count":13},{"id":"GO:0001867","count":12}]},{"hash":"1630337251993886491","title":"Redox homeostasis and oxidative stress response","description":"The cluster is enriched for GO terms centered on redox biology, including redox homeostasis, cellular response to oxidative stress, and oxidant detoxification, as well as deglutathionylation, all pointing to maintenance of redox balance and defense against oxidative damage. Some outlier terms (neural crest migration, RNA polymerase II regulation, nucleotide biosynthesis) appear unrelated, but the dominant theme across the set is redox regulation and oxidative stress response.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0071473","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0003147","count":2}]},{"hash":"1592364366460504103","title":"Chromatin assembly and cell cycle control","description":"Among the top GO terms are CENP-A chromatin assembly, DNA replication, mitotic cell cycle, and DNA-templated transcription, indicating a coordinated nuclear program for chromosome maintenance and division. Additional terms for proteasome assembly and ERAD/ER-Golgi trafficking reflect proteostasis linked to division. Together these point to a chromatin-centric cell cycle machinery.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":8},{"id":"GO:0051013","count":7},{"id":"GO:0061641","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0006888","count":7}]},{"hash":"576337328292070968","title":"Embryonic neural and skeletal development","description":"The cluster shows a strong representation of embryonic development, including neural tube closure and forebrain development, along with skeletal system development and general multicellular organism development. The presence of mitotic cell cycle and DNA-templated transcription terms supports active developmental proliferation and gene regulation. Stress-related terms (ER stress\u2013related apoptosis and cadmium response) appear as secondary responses in developing cells but do not dominate the theme. Overall, these proteins likely function in embryonic development with a focus on neural and skeletal formation.","confidence":"High","size":22,"edges":17,"triangles":3,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0007275","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0006349","count":5}]},{"hash":"798703675562122211","title":"Neuronal adhesion and synapse assembly","description":"The top GO terms cluster around nervous system development, paranodal junction assembly, and synapse-related adhesion, indicating a module dedicated to neural connectivity and synapse formation. Both homophilic and heterophilic cell\u2013cell adhesion support neural interactions, and positive regulation of synapse assembly with integrin signaling suggests coordinated adhesion and signaling during synaptogenesis; observed terms for nerve impulse transmission and sound perception further point to neuronal function. The bone ossification term appears peripheral to the main neural theme.","confidence":"High","size":22,"edges":46,"triangles":15,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030913","count":9},{"id":"GO:0007399","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0007157","count":7}]},{"hash":"290012467208287027","title":"Neurodevelopmental signaling and apoptosis","description":"The cluster is enriched in nervous system development terms (nervous system development, CNS development, neurogenesis) and key signaling pathways (Smoothened and Roundabout), with additional multicellular development and apoptotic process terms. This suggests a functional grouping around neurodevelopmental signaling and related cell fate processes, with some broader hormonal/immune signaling context.","confidence":"High","size":22,"edges":134,"triangles":288,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0007507","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0071372","count":7}]},{"hash":"2096423091644676343","title":"Redox Homeostasis and Xenobiotic Response","description":"The cluster is dominated by GO terms for redox balance (cell redox homeostasis, cellular oxidant detoxification) and response to xenobiotics, implying proteins that manage oxidative stress and detoxification of foreign compounds. Additional terms related to caffeine/cAMP signaling, calcium-channel regulation, and a hydroxylation modification suggest involvement in stress signaling and post-translational regulation within this detoxification network, with possible links to apoptosis under stress conditions.","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051262","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1997472593803369106","title":"Unknown","description":"The GO terms cover neural development (neural tube closure, left/right pattern formation), neural/dopamine response, immune activity (immunoglobulin production, chemokine regulation), and broad DNA-related processes (transcription, DNA repair, p53-mediated DDR) with no single unifying function. Because the cluster appears to span multiple, disparate biological themes rather than a cohesive process, a concise, representative label cannot be reliably assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:1903351","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0002377","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006281","count":3}]},{"hash":"392034675595758472","title":"Ubiquitin-Dependent Proteolysis and Autophagy","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent proteolysis and various deubiquitination activities) and autophagy, along with proteolysis and DNA repair, pointing to a theme of ubiquitin-regulated protein turnover and degradation. Some signaling and development terms appear, but the ubiquitin/proteolysis cluster is the strongest signal.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0042518","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0006281","count":3}]},{"hash":"979323466709541535","title":"Cytokinesis and Division Machinery","description":"The top GO terms cluster around mitotic cytokinesis, division septum and septin ring assembly, and meiosis-related chromosome alignment, which together point to a core theme of cell division and cytoskeletal organization. While other terms like spermatogenesis and neuron projection development are broader, the dominant signal is cytokinesis-related functions, justifying this label. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0000281","count":5},{"id":"GO:0000917","count":4},{"id":"GO:0007283","count":4},{"id":"GO:0090529","count":4},{"id":"GO:0017157","count":4}]},{"hash":"1003824291503062832","title":"Nuclear import and chromatin assembly","description":"Top terms cluster around nuclear import (NLS-bearing and ribosomal proteins) and chromatin-related processes (DNA replication-dependent chromatin assembly, meiosis-related cohesion and spindle elongation, and nuclear pore assembly), suggesting a cohesive role in nuclear transport and chromatin organization during cell division.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":8},{"id":"GO:0006610","count":8},{"id":"GO:0051754","count":8},{"id":"GO:0001938","count":7},{"id":"GO:0042518","count":7}]},{"hash":"80730485371388165","title":"Mitochondrial apoptosis and Complex IV assembly","description":"The cluster\u2019s top GO terms cluster around mitochondrial processes, including assembly of respiratory chain complex IV, regulation of cysteine-type protease activity involved in apoptosis, and cytochrome c release control. These collectively point to mitochondrial-dependent apoptosis signaling and mitochondrial respiratory chain organization. Some unrelated terms (sex differentiation, vagina development) likely represent annotation noise; overall, the dominant theme is mitochondrial apoptosis-related function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":3},{"id":"GO:0043154","count":3},{"id":"GO:0007548","count":3},{"id":"GO:0097202","count":3},{"id":"GO:0097192","count":3}]},{"hash":"303483797212217132","title":"ER-Golgi trafficking proteins","description":"The top GO terms cluster around ER-to-Golgi transport, COPI-coated vesicles, Golgi ribbon formation, and protein retention/exit regulation in the ER, indicating a cohesive secretory pathway function. A few reproductive/development terms may reflect tissue-specific roles but do not override the dominant trafficking theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":2},{"id":"GO:0007311","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0032525","count":2},{"id":"GO:0070863","count":2}]},{"hash":"1169136364075342028","title":"Telomere regulation and PARP signaling","description":"The terms cluster strongly around telomere maintenance (telomerase regulation, telomere capping) and PARP-mediated ADP-ribosylation, suggesting a shared function in telomere protection and DNA damage response. Some other terms (spindle assembly, Wnt signaling) are present but less central, making the telomere/PARP axis the best unifying theme.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":6},{"id":"GO:1904743","count":6},{"id":"GO:0070213","count":6},{"id":"GO:0016055","count":6},{"id":"GO:1900383","count":6}]},{"hash":"1322272115155259260","title":"Actin remodeling and cell migration signaling in development","description":"The cluster is enriched for actin cytoskeleton dynamics (lamellipodium assembly, actin reorganization), Rho signaling, PI3K signaling, ERK cascade, and Wnt signaling, with angiogenesis and thymus development also represented. Together these terms point to a coherent theme of actin-driven cell migration and signaling during vascular development and organ morphogenesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0014066","count":3},{"id":"GO:0090263","count":3}]},{"hash":"152768309602482117","title":"PI3K/AKT signaling in neural development and stem cells","description":"The top GO terms cluster around positive regulation of PI3K/AKT signaling and neural development (cerebral cortex development, asymmetric neuroblast division) along with stem cell maintenance, which together suggest a function in neural progenitor signaling and self-renewal. A few terms (tRNA processing, telomere maintenance) and DNA-templated transcription are more general or housekeeping, but do not outweigh the neural-development/stem-cell signaling theme. Therefore the label emphasizes PI3K pathway\u2013driven neural development and stem-cell regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0008033","count":1},{"id":"GO:0000722","count":1}]},{"hash":"2106260187169406937","title":"Plant telomere chromatin regulation","description":"These proteins appear to be linked by telomere- and chromatin-related processes in plants: subtelomeric heterochromatin formation, telomere protection from NHEJ, chromatin remodeling, and RNA localization at telomeres. The presence of plant-specific signals such as cytokinin-activated signaling and leaf senescence regulation suggests integration of chromatin state with developmental signaling. Taken together, the cluster likely represents plant telomere chromatin regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0072362","count":3},{"id":"GO:0031848","count":3},{"id":"GO:1904911","count":3},{"id":"GO:1900386","count":3},{"id":"GO:1900056","count":3}]},{"hash":"942069883258968444","title":"Development and ciliogenesis","description":"The top GO terms include multiple developmental processes across tissues (male gonad, brain, skin) and ciliogenesis (cilium assembly), along with related cellular activities like TGFB signaling and cell cycle control. This pattern suggests a cluster tied to developmental regulation with a focus on ciliary function, even though other terms (rRNA maturation, cadmium response) are present. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0060271","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1591886724410394245","title":"Multi-lineage differentiation and telomere regulation","description":"This cluster includes terms for differentiation across multiple lineages (Bergmann glial cells, fat cells, ventricular cardiac muscle) along with related processes like cell migration and mRNA processing. It also features telomere maintenance/capping and regulation of CDK activity, suggesting a tie to proliferation and cell-cycle control linked to differentiation. There isn\u2019t a single tight pathway, but the dominant theme is diverse lineage differentiation with accompanying telomere/cell-cycle regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":6},{"id":"GO:0060020","count":4},{"id":"GO:0035994","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0006397","count":4}]},{"hash":"2020806136852070470","title":"Mitochondrial Membrane Potential and Transport Regulation","description":"The cluster centers on GO terms for regulation of mitochondrial membrane potential, mitochondrial membrane permeability changes during apoptosis, and a suite of transmembrane transport processes (ADP, deoxynucleotides, CoA, ornithine, phosphate), suggesting a cohesive mitochondria-focused theme of membrane potential control and metabolite transport. The presence of an outlier term (female pregnancy) appears incidental. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":6},{"id":"GO:0060546","count":6},{"id":"GO:0008637","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0007565","count":5}]},{"hash":"1096558034532083079","title":"Synaptic adhesion and myogenesis","description":"This cluster centers on cell adhesion proteins and synaptic components (heterophilic/homophilic adhesion, synapse assembly, glutamatergic transmission) together with myoblast fusion and regulation of Rho signaling. The strongest common themes are adhesion and synapse formation, linking neural and muscle development contexts, including neuromuscular junction formation.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0051965","count":8},{"id":"GO:0043931","count":7},{"id":"GO:0016525","count":7},{"id":"GO:0007156","count":6}]},{"hash":"625470085194761358","title":"ER-Golgi trafficking and protein complex assembly","description":"Top GO terms point to protein complex assembly (homooligomerization, heterotrimerization) and intracellular trafficking in the secretory pathway (ER to Golgi vesicle transport). The ERAD-related term reinforces ER quality control, tying assembly to proper trafficking. Although the interaction network shows no edges, these terms collectively suggest a theme of protein complex formation linked with ER\u2013Golgi transport, with some stress-related signals such as hypoxia and innate immune response reflecting broader cellular contexts.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0006888","count":3}]},{"hash":"490611830990168963","title":"Ubiquitin-Dependent Antiviral Immunity","description":"The cluster is dominated by GO terms for ubiquitination and ubiquitin-dependent protein degradation, including ubiquitin-dependent proteolysis and autoubiquitination, together with innate immune response and defense against virus, and regulation of RIG-I signaling. This points to a core function in ubiquitin-mediated regulation of antiviral innate immunity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0016567","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0039536","count":6},{"id":"GO:0045087","count":6}]},{"hash":"403510633742854205","title":"Vertebrate embryonic organogenesis and neural development","description":"The terms emphasize transcriptional regulation by RNA polymerase II and broad embryonic development across neural and organ systems (brain segmentation, rhombomere and motor neuron fate, eye and lens morphogenesis, lung branching, thyroid development). This points to a cohesive theme of vertebrate embryonic patterning and organogenesis driven by transcriptional control, especially in neural lineage and associated organs. Confidence in this label is High.","confidence":"","size":21,"edges":209,"triangles":1311,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0035284","count":11},{"id":"GO:0021571","count":11},{"id":"GO:0060441","count":10},{"id":"GO:0043010","count":10}]},{"hash":"1667086667048690783","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for translation and ribosome biogenesis/assembly (translation, ribosome biogenesis, ribosomal subunit assembly, ribosomal large subunit biogenesis), with additional signals for cytoplasmic translation regulation and related transcription, suggesting proteins involved in ribosome production and protein synthesis.","confidence":"High","size":21,"edges":191,"triangles":1072,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0042254","count":5},{"id":"GO:0046677","count":4},{"id":"GO:0006415","count":4},{"id":"GO:0000027","count":4}]},{"hash":"1467407002343971368","title":"Vertebrate embryonic morphogenesis","description":"This cluster is enriched for GO terms related to embryonic development and morphogenesis across multiple organs (eye, brain, heart, hindlimb, gonad), plus transcription by RNA polymerase II, suggesting a set of proteins involved in vertebrate development and regulation of gene expression during morphogenesis.","confidence":"Medium","size":21,"edges":183,"triangles":900,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0048048","count":12},{"id":"GO:0060441","count":11},{"id":"GO:0043010","count":11},{"id":"GO:0035284","count":10}]},{"hash":"416519640856548473","title":"Embryonic Development and Inflammatory Signaling","description":"The top GO terms cluster around vertebrate development (lung, cartilage, skeletal joint morphogenesis, male gonad development, hematopoietic progenitor differentiation) and immune/hormonal signaling (inflammatory response, calcineurin-NFAT signaling, thyroid hormone response). Some terms are peripheral (response to antibiotic, NO signaling regulation) but overall the set points to genes coordinating developmental programs with immune and hormonal pathways.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010751","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0002244","count":4},{"id":"GO:0008584","count":3}]},{"hash":"838560851137502869","title":"Vertebrate endocrine and nervous system development","description":"The cluster is enriched for developmental processes across vertebrate endocrine and neural tissues (pituitary, retina, thyroid, pancreas, habenula) and broader multicellular organism development, suggesting proteins involved in organogenesis of endocrine and nervous systems.","confidence":"High","size":21,"edges":202,"triangles":1194,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0021983","count":11},{"id":"GO:0060041","count":10},{"id":"GO:0021986","count":10},{"id":"GO:0090190","count":10}]},{"hash":"1990187918955370528","title":"Cardiac energy metabolism and heart development","description":"This cluster is enriched for fatty acid oxidation and carnitine metabolism, mitochondrial ATP synthase assembly, and cholesterol metabolism, pointing to energy production in muscle cells. The presence of heart development and angiogenesis terms, along with actin cytoskeleton remodeling and muscle activity responses, suggests a cohesive theme linking metabolic capacity with structural and vascular remodeling in cardiac tissue. The NF-kappaB signaling term adds a regulatory layer commonly seen in cardiovascular contexts, supporting a cardiovascular metabolism/remodeling interpretation.","confidence":"Medium","size":21,"edges":67,"triangles":43,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0019254","count":2},{"id":"GO:0033540","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0033615","count":2}]},{"hash":"1507818481538737063","title":"Embryonic organogenesis and immune development","description":"Top terms indicate broad involvement in embryonic development and tissue morphogenesis (inner ear, mesendoderm, lung branching, chorio-allantoic fusion, lymph node formation) as well as key signaling through PI3K/AKT. Immune-related terms (T cell homeostasis, negative regulation of phagocytosis) suggest concurrent modulation of immune cell function during development. Taken together, this cluster appears to group proteins participating in developmental signaling and organogenesis with immune regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0048839","count":7},{"id":"GO:0048535","count":7},{"id":"GO:0043029","count":7},{"id":"GO:0010763","count":7},{"id":"GO:0035307","count":7}]},{"hash":"1643347114329082452","title":"T Cell Activation and Cytoskeletal Remodeling","description":"The cluster centers on T cell\u2013related signaling and cytoskeletal dynamics, with strong representation of T cell receptor signaling (GO:0050852) and ERK/MAPK cascade regulation (GO:0070374), along with actin cytoskeleton remodeling and lamellipodium assembly (GO:0010592, GO:0031532). Beta selection and cellular responses to mechanical stimuli further support a T cell development/activation theme, while interferon production relates to immune signaling. Together, these terms point to proteins involved in T cell activation and cytoskeletal remodeling essential for immune responses.","confidence":"High","size":21,"edges":162,"triangles":651,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0043552","count":11},{"id":"GO:0048873","count":11},{"id":"GO:0031532","count":11}]},{"hash":"1020402858290212359","title":"Neural signaling and sensory perception","description":"This cluster centers on neural communication and sensory processing, as evidenced by GO terms for visual perception, sensory perception of sound, GABAergic synaptic transmission, regulation of dopamine secretion, and membrane potential regulation. These collectively point to neuronal signaling and sensory pathways as the core theme. Some terms (heart development, saliva secretion, transepithelial chloride transport, and apoptotic/ autophagy-related processes) may reflect broader tissue expression or secondary roles, but they do not override the dominant neural/sensory theme. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0046541","count":2},{"id":"GO:0042391","count":2}]},{"hash":"766387488559395943","title":"Innate and adaptive immune activation","description":"This cluster is dominated by GO terms related to innate immunity (innate immune response, phagocytosis/recognition, complement activation) and adaptive immunity (positive regulation of B cell activation, B cell receptor signaling), suggesting proteins involved in host defense through both phagocytic processes and B cell\u2013mediated signaling. A couple of terms (e.g., paranodal junction assembly, sensory detection) may reflect broader annotations or multi-function proteins, but the core theme is immune activation.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0006911","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0045087","count":5}]},{"hash":"1021337420105192755","title":"Sensory perception and stimulus-response signaling","description":"The cluster is enriched for terms related to sensory perception (pain, vision) and to responses to various stimuli (temperature, prostaglandin signals, adrenergic signaling, cocaine-related behavior, cAMP pathways). This suggests a common theme of detecting and responding to environmental or physiological cues, likely through neural signaling and downstream signaling cascades. Some terms like heart development are less directly connected, possibly reflecting pleiotropy, but the dominant pattern centers on sensory/stimulus-response functions.","confidence":"Medium","size":21,"edges":60,"triangles":25,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0002024","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0007507","count":10},{"id":"GO:0007601","count":10}]},{"hash":"2130226610357185375","title":"Vision and pain sensory signaling","description":"Top terms indicate a cohesive focus on sensory perception (pain, vision) and related signaling pathways (opsin signaling, prostaglandin response, ERK1/2 cascade, GTPase regulation), suggesting a module involved in neurosensory signal transduction and perception, especially visual and nociceptive pathways. Some terms like heart development and saliva secretion are less directly connected and may reflect broader annotation, but the dominant theme is sensory signaling and perception.","confidence":"Medium","size":21,"edges":192,"triangles":1028,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0046541","count":12},{"id":"GO:0010759","count":12},{"id":"GO:0048148","count":12}]},{"hash":"241431482301759831","title":"Nociception and vision signaling with drug response","description":"Based on the dominant GO terms, the proteins cluster around sensory processing and neural signaling, especially nociception (pain) and vision, with related behavioral responses to drugs (cocaine). Temperature-related responses and immune signaling are present but secondary. The label captures the main theme of pain and vision pathways with drug-response features.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0045494","count":6},{"id":"GO:0032720","count":6}]},{"hash":"275971548091466212","title":"Nuclear transcription and genome maintenance","description":"These proteins carry GO terms tied to RNA polymerase II transcription elongation, mRNA export, nucleosome assembly, DNA replication, and double-strand break repair, indicating a core function in nuclear gene expression and genome integrity. Some developmental terms appear but do not override the main nuclear maintenance signature.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032968","count":3},{"id":"GO:0006302","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006354","count":2}]},{"hash":"409731587725357138","title":"Mitotic cell cycle and vesicle trafficking","description":"This cluster centers on core cell cycle processes (cell division, mitotic cell cycle, cell cycle) and vesicle trafficking pathways (endosome-to-lysosome transport, multivesicular body assembly, exosomal secretion regulation, and calcium-dependent exocytosis). The co-occurrence of signaling-related terms like phosphorylation and protein oligomerization supports coordinated regulation during division and vesicle sorting, with nervous system development as a broader contextual annotation. Overall, the dominant themes are mitotic control paired with vesicle trafficking, suggesting a functional module linking cell proliferation to secretory/trafficking pathways.","confidence":"Medium","size":21,"edges":26,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0007049","count":6},{"id":"GO:0008333","count":6},{"id":"GO:0036258","count":6}]},{"hash":"751147077105837475","title":"Coagulation and inflammatory vascular response","description":"The top GO terms cluster around blood coagulation, inflammatory response, LPS-induced signaling, and vascular regulation (vasoconstriction and smooth muscle contraction), with additional notes on pain perception and cell proliferation. This suggests a coherent theme of coagulation-linked inflammatory vascular pathways. The retina development term appears tangential, possibly due to shared developmental or annotation overlaps rather than a core function of the cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":14},{"id":"GO:0019233","count":13},{"id":"GO:0032496","count":13},{"id":"GO:0045907","count":13},{"id":"GO:0006954","count":13}]},{"hash":"1473733104556598123","title":"Neuropeptide Signaling and Pain Response","description":"The cluster is dominated by neural signaling terms: neuropeptide signaling, sensory perception of pain, and serotonin regulation, pointing to modulation of neural communication and pain processing. Additional terms include xenobiotic and bacterial responses and tissue-specific roles (photoreceptor maintenance, heart development), but the core theme appears to be neuropeptide-mediated signaling linked to pain. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":11},{"id":"GO:0019233","count":10},{"id":"GO:0014063","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0043278","count":10}]},{"hash":"1917021629076403547","title":"Cardiovascular signaling and energy metabolism","description":"The top GO terms strongly point to cardiovascular signaling and heart-related regulation (positive regulation of blood pressure, heart development, GPCR signaling activating adenylate cyclase, activation of adenylate cyclase). In addition, electron transport chain and thermogenesis/heat generation indicate core energy metabolism. Some terms (pain regulation, immune cell differentiation, ovarian follicle growth) are less central to this theme, but the dominant pattern supports a cluster centered on heart signaling with metabolic energy processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":21},{"id":"GO:0022900","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0007190","count":20},{"id":"GO:0007507","count":19}]},{"hash":"1477116512544748906","title":"Cell signaling and cytoskeletal regulation","description":"The top GO terms point to signaling pathways (extrinsic apoptotic signaling, Rac/GTPase regulation), control of cell shape and polarity, and vesicular trafficking (endosome-to-lysosome transport), with a note on mitotic cytokinesis. This pattern suggests a theme of coordinating signaling with cytoskeletal dynamics and trafficking to influence cell fate and division, even if a few terms (bone development, heterochromatin formation) are less central.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008625","count":2},{"id":"GO:0007406","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0000281","count":2}]},{"hash":"1354937063029636088","title":"Unknown","description":"The top GO terms span unrelated processes (GPCR signaling, telomere maintenance, lipid catabolism, hormone secretion, inflammatory mediator production, macrophage differentiation, and epithelial polarity), with no single cohesive function linking the proteins. Therefore a specific, representative label cannot be determined.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":12},{"id":"GO:0032212","count":11},{"id":"GO:0046475","count":11},{"id":"GO:1904743","count":11},{"id":"GO:2000031","count":11}]},{"hash":"1843729417021159111","title":"Mitotic progression and cytoskeletal remodeling","description":"This cluster centers on core mitotic functions (mitotic spindle assembly, mitotic cell cycle, cell division) and changes to the cytoskeleton (actin filament depolymerization), complemented by vesicle trafficking (COPII budding) and regulatory processes (ubiquitination, Wnt signaling) that commonly accompany cell division and growth. The convergence of these terms suggests proteins involved in advancing mitosis through cytoskeletal remodeling and coordinated transport and signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0030042","count":5},{"id":"GO:0090114","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1821716183666556639","title":"Synaptic Vesicle Trafficking and Neurotransmitter Release","description":"The top GO terms point to synaptic vesicle maturation, neurotransmitter secretion, and endosome-to-lysosome/endosome trafficking, all of which fit a theme of presynaptic vesicle handling and signaling at neuronal synapses. While mitotic terms appear among the list, the strongest signal is for vesicle transport and synaptic transmission, suggesting the cluster groups proteins involved in neuronal vesicle trafficking rather than cell division.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008333","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016188","count":3}]},{"hash":"1193476084900696217","title":"Actin cytoskeleton remodeling and cell polarity signaling","description":"The top terms converge on actin dynamics and signaling (Arp2/3 nucleation, GTPase/Rho regulation) and on polarity establishment (epithelial planar polarity), suggesting the cluster reflects cytoskeleton-driven cell polarity processes. Some unrelated terms appear, but the dominant theme is cytoskeletal regulation and polarity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0034314","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0008283","count":4}]},{"hash":"428501866634064212","title":"Neural development and tissue morphogenesis","description":"This cluster is enriched for CNS development, nerve impulse transmission, and interneuron migration, with additional signals of cell adhesion and collagen fibril organization, suggesting a program focused on neural development and general tissue morphogenesis. While some terms touch on other organs (heart, salivary gland), the neural and morphogenetic cues are the strongest theme.","confidence":"High","size":20,"edges":103,"triangles":297,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0042517","count":13},{"id":"GO:0008284","count":12},{"id":"GO:0007432","count":12},{"id":"GO:0019226","count":12}]},{"hash":"33335520314131051","title":"Multi-tissue development and morphogenesis","description":"The terms cluster around developmental differentiation and tissue morphogenesis across diverse lineages (neural, glial, vascular, pancreatic), plus transcriptional regulation as a common underpinning, indicating a broad developmental program rather than a single pathway.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:0048712","count":18},{"id":"GO:2001038","count":18},{"id":"GO:0030318","count":17},{"id":"GO:0014003","count":17}]},{"hash":"1004192945947579625","title":"Mitochondrial translation and respiratory chain assembly","description":"This cluster centers on mitochondrial protein synthesis and energy metabolism: mitochondrial translation, ribosomal subunit assembly in mitochondria, and regulation of translational fidelity, along with assembly of the mitochondrial respiratory chain (Complex IV) and electron transport-driven ATP synthesis. The co-enrichment of mitochondrial translation and respiration terms indicates proteins coordinating mitochondrial gene expression with energy production.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0000027","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0033617","count":2}]},{"hash":"1319279372980722297","title":"TLR-driven Immune Activation and Regulation","description":"The top terms cluster around toll-like receptor (TLR) signaling (TLR1 pathway), immune responses (B cell proliferation, response to fungus), and immunomodulatory signals (cortisol response) plus broader signaling regulation. Although some terms touch on ECM or development (collagen fibril organization, axonogenesis) these are likely peripheral, and the dominant theme appears to be innate immune signaling and immune cell activation/regulation.","confidence":"Medium","size":20,"edges":21,"triangles":2,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014068","count":16},{"id":"GO:0006469","count":16},{"id":"GO:0034130","count":15},{"id":"GO:0007409","count":15},{"id":"GO:1900155","count":15}]},{"hash":"2298394298111171359","title":"Developmental organogenesis and neuronal signaling","description":"This cluster features GO terms tied to organ development (kidney, heart, bone ossification) and regulatory/transcriptional activity (kinase activity regulation, DNA binding), plus exocytosis and neurotransmitter secretion with memory-related processes, suggesting a group of proteins coordinating organogenesis and neuronal signaling, with some stress-response modulation.","confidence":"Medium","size":20,"edges":153,"triangles":617,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":15},{"id":"GO:0006469","count":13},{"id":"GO:0071456","count":12},{"id":"GO:0007613","count":12},{"id":"GO:0043388","count":12}]},{"hash":"266205671383218285","title":"Actin Cytoskeleton Remodeling and Endomembrane Trafficking","description":"The cluster is enriched for actin-related processes (filopodium and stress fiber assembly, axon guidance) alongside extensive vesicle and endosomal transport (endosome-to-lysosome/Golgi/vacuole) and phagosome-lysosome fusion, indicating a cohesive theme of cytoskeletal dynamics coupled with intracellular trafficking.","confidence":"High","size":20,"edges":65,"triangles":87,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":16},{"id":"GO:0007411","count":16},{"id":"GO:0051496","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0008333","count":16}]},{"hash":"1575447401962136522","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"This cluster centers on actin-driven structural dynamics: lamellipodium and filopodium assembly, Rac/Rho signaling, and cell spreading/adhesion. While there are tissue-specific contexts (heart development, B cell maturation, endothelial barrier formation), the shared themes point to cytoskeletal remodeling governing cell movement and adhesion.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0098761","count":3},{"id":"GO:0035020","count":3}]},{"hash":"1924672193982883389","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0042254","count":7},{"id":"GO:0031120","count":6},{"id":"GO:0031118","count":6},{"id":"GO:0000462","count":5}]},{"hash":"1408886185492287033","title":"Unknown","description":"The cluster\u2019s top GO terms include both fungal-specific processes (ascospore wall assembly, karyogamy) and vertebrate development (substantia nigra development, skeletal muscle fiber development), plus general processes like endocytosis regulation, actin patch assembly, hypoxia response, DNA replication, and kinase regulation. This mix suggests no single coherent biological function tying all proteins together, so a single descriptive label isn\u2019t evident.","confidence":"","size":20,"edges":99,"triangles":247,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030476","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0030100","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0048741","count":4}]},{"hash":"1113728201941976302","title":"Integrin signaling and actin remodeling in leukocytes","description":"The cluster centers on integrin activation/signaling, regulation of Rho and Rac pathways, and lamellipodium assembly, which together drive cytoskeletal remodeling and cell migration; accompanying immune-related terms (IL-4, IL-7 responses, B cell maturation) support a leukocyte adhesion/movement theme, making this a cohesive immune cell adhesion and migration cluster.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0007229","count":7},{"id":"GO:0033623","count":6},{"id":"GO:0033622","count":6},{"id":"GO:1904140","count":5}]},{"hash":"1853760576298525331","title":"TGF-beta signaling in development and immunity","description":"These proteins cluster around TGF-beta\u2013responsive signaling and kinase activity, with terms like positive regulation of peptidyl-tyrosine phosphorylation, cellular response to TGF-beta stimulus, JUN phosphorylation, and positive regulation of GTPase activity. They also show innate immune modulation (innate immune response, NK cell regulation) and tissue development (bone, heart, uterus development), suggesting a role for TGF-beta\u2013driven signaling in development with immune and cardiovascular context. Overall, the theme is signaling networks linking development and immune regulation, centered on TGF-beta pathways.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050731","count":14},{"id":"GO:0071560","count":14},{"id":"GO:0043547","count":14},{"id":"GO:0045087","count":14},{"id":"GO:0060348","count":14}]},{"hash":"1182927665754953372","title":"Vertebrate Embryogenesis and Neural Development","description":"This cluster's GO terms cluster around vertebrate embryonic development and neural patterning, with specific emphasis on primitive streak formation, brain segmentation, peripheral nervous system neuron development, and organ morphogenesis (eye, pituitary, gonads, lung). A unifying theme is developmental regulation and morphogenesis driven by transcriptional control during embryogenesis.","confidence":"High","size":20,"edges":42,"triangles":9,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8},{"id":"GO:0048048","count":7},{"id":"GO:0008584","count":7}]},{"hash":"1879336786415986901","title":"Neuronal signaling and ion transport","description":"The cluster is dominated by ion channel and neurotransmission themes: potassium, sodium, and calcium transport, membrane depolarization, and both excitatory and GABA signaling. The inclusion of behavioral terms such as locomotory behavior, startle response, conditioned taste aversion, and circadian sleep regulation indicates these proteins collectively underpin neural circuit activity driving movement, arousal, and related behaviors. This coherent theme supports a label centered on neural signaling and ion transport.","confidence":"High","size":20,"edges":54,"triangles":50,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":19},{"id":"GO:0060079","count":18},{"id":"GO:0035725","count":18},{"id":"GO:0007214","count":16},{"id":"GO:0001661","count":16}]},{"hash":"959512488950659483","title":"Actin cytoskeleton remodeling and adherens junction regulation","description":"The top terms emphasize actin-based structures (filopodium, stress fibers), small GTPase signaling, and adherens junction organization, all pointing to coordinated cytoskeletal remodeling and cell\u2013cell adhesion with mechanical sensing during growth. This combination best captures the cluster\u2019s shared function.","confidence":"High","size":20,"edges":67,"triangles":109,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055091","count":9},{"id":"GO:0010628","count":9},{"id":"GO:0035264","count":8},{"id":"GO:0034332","count":8},{"id":"GO:0000060","count":8}]},{"hash":"871736614248244871","title":"Mitochondrial transport and membrane potential regulation","description":"The top terms point to transport across mitochondrial membranes (ADP, phosphate, ornithine, CoA), regulation of membrane permeability and membrane potential, and associated apoptotic changes, all indicating a cohesive function centered on mitochondrial transport and energy regulation; an outlier term related to pregnancy is noted but does not redefine the core theme.","confidence":"High","size":20,"edges":25,"triangles":27,"max_degree":8,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0034198","count":9},{"id":"GO:0097274","count":9},{"id":"GO:0008637","count":8},{"id":"GO:0035435","count":8},{"id":"GO:0007565","count":8}]},{"hash":"2040703191754445428","title":"Skeletal Muscle Contraction Regulation","description":"The top GO terms are dominated by skeletal muscle contraction and its regulation (including force regulation and slow-twitch fiber contraction) as well as muscle filament sliding, indicating the proteins cluster around muscle contraction machinery and its control; some unrelated terms appear but the core theme is muscle function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014728","count":8},{"id":"GO:0032796","count":8},{"id":"GO:0031449","count":8},{"id":"GO:0030049","count":8},{"id":"GO:0003009","count":8}]},{"hash":"371874558499731054","title":"Neural Signaling and Sensory Perception","description":"This cluster is dominated by neural signaling and sensory processing terms: positive regulation of ERK1/2 cascade, dopaminergic synaptic transmission, visual perception and learning, sensory perception of pain, cocaine response, and calcium-mediated signaling. While a couple of terms touch on non-neural processes (macrophage chemotaxis, heart development), the prevailing theme centers on neuronal signaling and sensory-behavioral modulation.","confidence":"Medium","size":20,"edges":76,"triangles":130,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":19},{"id":"GO:0010759","count":19},{"id":"GO:0019233","count":18},{"id":"GO:0007601","count":18},{"id":"GO:0008542","count":18}]},{"hash":"1737794102943909426","title":"Calcium signaling in development","description":"The top GO terms point to broad developmental processes across tissues (multicellular organism development, skin and bone formation, neural structures like SA node and globus pallidus development) and a clear calcium signaling thread (release of Ca2+ from the sarcoplasmic reticulum, Ca2+ import across the plasma membrane). Some terms also involve Ca2+-dependent processes such as vasopressin secretion. Overall, the cluster appears to group proteins involved in developmental regulation with calcium-mediated signaling as a central mechanism.","confidence":"Medium","size":20,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":13},{"id":"GO:0098907","count":10},{"id":"GO:0021759","count":10},{"id":"GO:0043931","count":10},{"id":"GO:0014808","count":9}]},{"hash":"1966992585003551486","title":"Leukocyte signaling and migration","description":"The top GO terms point to immune cell signaling and motility: Rho and Ras pathway regulation, lamellipodium assembly, neutrophil chemotaxis, B cell receptor signaling, and cytokine-related responses (interleukin-4 production and IL-7 signaling), all of which together indicate cytoskeletal remodeling and directed movement in immune cells. This suggests a cohesive cluster centered on leukocyte signal transduction and migration rather than disparate pathways.","confidence":"High","size":20,"edges":63,"triangles":62,"max_degree":14,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0046580","count":9},{"id":"GO:0010765","count":9},{"id":"GO:0050853","count":9},{"id":"GO:0030593","count":8}]},{"hash":"1683309329691369806","title":"DNA Replication and Repair","description":"This cluster centers on genome maintenance, with strong representation of DNA replication and DNA repair terms, including DNA replication, DNA biosynthetic process, DNA repair, and regulation of double-strand break repair via homologous recombination. The presence of repair pathways tied to replication stresses (e.g., replication-born DSB repair via sister chromatid exchange and response to gamma radiation) supports a cohesive DNA damage response / replication machinery theme, with xenobiotic/toxic stress signals as ancillary DDR-related responses.","confidence":"High","size":20,"edges":113,"triangles":321,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0071897","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0071480","count":3}]},{"hash":"349604279939339976","title":"Heart development and endothelial differentiation","description":"The top GO terms indicate multicellular organism development with a focus on cardiac morphogenesis (endocardial cushion formation), cell adhesion, and endothelial differentiation, along with ECM remodeling via hyaluronan biosynthesis. This pattern suggests a cluster of proteins involved in heart development and vascular endothelial formation rather than a single tissue-specific function.","confidence":"High","size":20,"edges":55,"triangles":55,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":16},{"id":"GO:0007160","count":15},{"id":"GO:0007157","count":15},{"id":"GO:0003273","count":14},{"id":"GO:1900127","count":14}]},{"hash":"1113043047787497720","title":"Cyclic Nucleotide Signaling Regulation","description":"Based on the GO terms, the cluster centers on regulation and signaling involving cyclic nucleotides (cGMP and cAMP): negative regulation of receptor guanylyl cyclase signaling, cellular response to cGMP, cAMP catabolic/regulatory processes, and related signaling impacts. Additional terms related to smell perception, neutrophil chemotaxis, and cardiac muscle contraction can all be modulated by cyclic nucleotide pathways, supporting a cohesive theme of cyclic nucleotide signaling regulation across diverse tissues.","confidence":"High","size":20,"edges":5,"triangles":1,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010754","count":18},{"id":"GO:0071321","count":18},{"id":"GO:0007608","count":18},{"id":"GO:0033159","count":16},{"id":"GO:0006198","count":16}]},{"hash":"1641326909295693561","title":"Auditory Neuronal Signaling and Ion Transport","description":"This cluster centers on GO terms tied to sound perception and neuronal signaling, including detection of mechanical stimulus involved in sensory perception of sound, sensory perception of sound, membrane depolarization, excitatory postsynaptic potential, and sodium/potassium ion transmembrane transport. Together, they point to proteins involved in auditory signal transduction and neuronal excitability. A few outlier terms (optic nerve morphogenesis, chondrocyte morphogenesis, acrosome reaction, nicotine-related behavior) are more diverse and likely reflect broader annotations, but do not negate the dominant auditory signaling theme.","confidence":"Medium","size":20,"edges":3,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":10},{"id":"GO:0007605","count":8},{"id":"GO:0051899","count":8},{"id":"GO:0060079","count":8},{"id":"GO:0071805","count":8}]},{"hash":"1182036972089873675","title":"Ribosome biogenesis and chromatin modification","description":"The top GO terms center on ribosome biogenesis and translation, alongside nucleosome assembly and histone modifications (H3K4/K27). This points to a cluster of proteins involved in core gene expression processes, spanning both ribosome/translation and chromatin regulation. The mixed signals suggest a broader \"gene expression machinery\" theme rather than a single specific pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0044648","count":2},{"id":"GO:2001040","count":2}]},{"hash":"686091072704052100","title":"Neuronal development and Rho-GTPase signaling","description":"The top GO terms cluster around brain development, synapse assembly, myelination in the peripheral nervous system, and positive regulation of dendrite extension, all pointing to neuronal growth and connectivity. Several terms also indicate Rho/GTPase signaling and phosphatidylinositol regulation, suggesting cytoskeletal remodeling as a common mechanism. A single term related to follicular B cell differentiation appears as a minor outlier but does not dominate the cluster\u2019s theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0022011","count":3},{"id":"GO:0060304","count":3}]},{"hash":"1700002536202241549","title":"Cardiac development and Rho-GTPase signaling","description":"This cluster is dominated by heart-related terms (heart development, paraxial mesoderm development, cardiac muscle contraction) and signals involving Rho GTPase pathways (regulation of Rho protein signal transduction, positive regulation of GTPase activity). The convergence on cardiogenesis and cytoskeletal regulation by Rho suggests proteins functioning together in heart development and associated muscle dynamics, with some broader development terms adding context but not contradicting the core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0048339","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0008344","count":3}]},{"hash":"514404904488727305","title":"Developmental Morphogenesis and Cytoskeletal Regulation","description":"The top GO terms cluster around development across multiple tissues (multicellular organism development, skeletal system development, lens differentiation, neuron projection development, heart development, male gonad development), suggesting a broad role in morphogenesis. Coupled with barbed-end actin filament capping and positive regulation of GTPase activity, the proteins likely participate in cytoskeletal remodeling and signaling needed for tissue formation, while retrograde vesicle transport (Golgi to ER) supports trafficking essential during development. This combination points to a cohesive theme of developmental morphogenesis with cytoskeletal dynamics.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0008584","count":3}]},{"hash":"506165275282421047","title":"Fungal pseudohyphal and invasive growth under glucose limitation","description":"Dominant terms describe filamentous morphogenesis in response to glucose limitation (invasive growth and pseudohyphal growth), supported by trafficking and secretion processes essential for cell surface remodeling during this growth mode. Some annotations appear generic or cross-species, but the core theme is fungal filamentous growth under nutrient stress.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":3},{"id":"GO:0007124","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0070509","count":2},{"id":"GO:0030900","count":2}]},{"hash":"1709213138139078859","title":"Vertebrate embryonic tissue differentiation","description":"The top GO terms point to development and differentiation across multiple tissues\u2014muscle, neural (oligodendrocyte), ear (otic placode, sensory), craniofacial skeleton, and skin\u2014often governed by transcriptional regulation. This suggests the cluster reflects general embryonic tissue differentiation programs rather than a single pathway, justifying a vertebrate developmental label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0035994","count":4},{"id":"GO:0045736","count":3},{"id":"GO:0035914","count":3},{"id":"GO:0048709","count":3}]},{"hash":"589068773320120872","title":"Platelet Activation and Integrin Signaling","description":"The top GO terms converge on platelet-related processes: positive regulation of platelet activation, thrombin-activated receptor signaling, and regulation of integrin activation, plus cell spreading and Rho-mediated signaling relevant to platelet adhesion and cytoskeletal remodeling. Although hemopoiesis and heart development are broader context terms, the dominant theme is platelet activation and integrin signaling, with a few general cellular processes included. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030097","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0033623","count":5},{"id":"GO:0006924","count":5},{"id":"GO:0035023","count":5}]},{"hash":"1378073210876164114","title":"Developmental remodeling and immune responses","description":"These proteins pull in GO terms from various developmental processes across tissues (eye and visual system development, vasculature, skin/keratinocyte differentiation, implantation) as well as immune and extracellular matrix\u2013related activities (complement activation, membrane attack complex activation, wound healing, elastic fiber assembly). The common thread is tissue development and remodeling intertwined with immune/modulatory functions, indicating a broad developmental/remodeling cluster rather than a single narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007338","count":4},{"id":"GO:0043010","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0060976","count":3},{"id":"GO:0030216","count":3}]},{"hash":"660458501589705165","title":"Wnt signaling in neural development","description":"The cluster is enriched for terms centering on Wnt signaling regulation (positive/negative regulation, canonical pathway) and neural development (neural plate development, midbrain dopaminergic neuron differentiation, dorsal identity). Adherens junction assembly and embryonic cell-cycle regulation further reflect developmental patterning contexts modulated by Wnt signaling. This combination suggests a coherent theme of Wnt-mediated neural development with linked cell-cycle control.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":16},{"id":"GO:0034333","count":14},{"id":"GO:0072053","count":14},{"id":"GO:0061324","count":14},{"id":"GO:2000017","count":14}]},{"hash":"2011639464959565544","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":18,"triangles":4,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034316","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0000472","count":6},{"id":"GO:0000447","count":6}]},{"hash":"614019347586841618","title":"Developmental Signaling and Cytoskeletal Regulation","description":"The proteins cluster around signaling pathway regulation (Wnt, JNK, Rho/GTPase), cell adhesion and polarity, and cytoskeletal dynamics (cell spreading, polarity), with ubiquitin-mediated turnover contributing to regulation. Although innate immune and apoptotic terms appear, the dominant theme is modulation of signaling and cytoskeleton during development and tissue organization, making this a coherent label despite some outliers.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0090162","count":3}]},{"hash":"2076407136473658104","title":"Neural development and differentiation","description":"The top terms point to neural lineage specification and brain development\u2014subpallium neuron fate, cortical GABAergic interneuron differentiation, spinal cord motor neuron and oligodendrocyte fate specification, and astrocyte differentiation\u2014indicating a core theme of neural development. Additional terms (bronchiole and pancreatic development, osteoblast differentiation) suggest broader developmental regulation, but the strongest signal remains neural differentiation programs. ","confidence":"Medium","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0060766","count":14},{"id":"GO:0045668","count":14},{"id":"GO:0060163","count":13},{"id":"GO:0021892","count":13}]},{"hash":"1983158142971070474","title":"Gene Expression Regulation and Mitochondrial Dynamics","description":"The listed GO terms cover transcription, mRNA splicing, and translation initiation (including IRES-dependent initiation) as well as ubiquitination and cell cycle processes, with mitochondrial fission also present. This suggests a cluster centered on regulation of gene expression at multiple levels, complemented by mitochondrial dynamics and cell division, rather than a single, narrow function.","confidence":"Medium","size":19,"edges":19,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0000266","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0075522","count":4}]},{"hash":"500281189192160276","title":"Developmental signaling and morphogenesis","description":"The terms cluster around regulation and activation of key signaling pathways (Wnt, TGF-beta, integrin signaling) that drive morphogenesis and tissue remodeling (face morphogenesis, endothelial migration), with additional links to immune sensing and hormonal regulation. This suggests the proteins act together to coordinate developmental signaling and structural changes, rather than a single, narrow function.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":13},{"id":"GO:0002092","count":11},{"id":"GO:0090263","count":11},{"id":"GO:0071560","count":11},{"id":"GO:0046676","count":11}]},{"hash":"1291526833674152509","title":"Embryogenesis and Neural Development Regulators","description":"The proteins in this cluster are enriched for broad developmental processes, including embryogenesis (primitive streak formation, outflow tract morphogenesis, organogenesis) and neural development (brain and midbrain development). The presence of tissue-specific development terms (gonad, pituitary, roof of mouth, uterus) alongside general developmental terms suggests regulators that coordinate developmental gene expression across multiple tissues. The inclusion of negative regulation of transcription by RNA polymerase II indicates transcriptional control roles typical of developmental regulators. Overall, this set appears to reflect regulators of embryonic growth and neural patterning rather than a single tissue-specific function.","confidence":"Medium","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0008584","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0090009","count":9},{"id":"GO:0030901","count":9}]},{"hash":"729020491793096512","title":"Innate immunity and complement activation","description":"The top GO terms show strong signals for response to lipopolysaccharide and activation of the complement system (lectin and classical pathways), suggesting the proteins cluster around innate immune functions. Other terms related to development and transcription regulation appear but are likely background or pleiotropic roles. Overall, the dominant immune terms support a label centered on innate immunity and complement activity.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032496","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0035264","count":6},{"id":"GO:0061113","count":6},{"id":"GO:0001867","count":6}]},{"hash":"2066537324826493445","title":"Developmental cell migration and signaling","description":"This cluster is driven by several migration-related GO terms (hemocyte migration; embryonic interneuron precursor migration) and signaling pathways (Rap signal transduction; TORC2 signaling), with supporting development terms like keratinocyte development and anatomical structure arrangement. While there are also trafficking and cell cycle terms, the recurring emphasis on movement during development and associated signaling makes this label intuitive and representative.","confidence":"Medium","size":19,"edges":12,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090385","count":19},{"id":"GO:0021831","count":19},{"id":"GO:0032486","count":19},{"id":"GO:0018125","count":19},{"id":"GO:0035900","count":19}]},{"hash":"1522393116315936181","title":"Forebrain development transcription regulators","description":"The GO terms cluster around transcriptional regulation (RNA Pol II, DNA-templated transcription) and forebrain development, with associated neural proliferation signals, pointing to proteins that coordinate gene expression during neural forebrain development and progenitor proliferation.","confidence":"High","size":19,"edges":52,"triangles":86,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0048146","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0050731","count":3},{"id":"GO:0007275","count":3}]},{"hash":"474444450391233792","title":"Membrane Transport and Lipid Remodeling","description":"The cluster centers on transmembrane transport and lipid-related processes, including proton and cation transport, potassium import, phospholipid translocation/dephosphorylation, and Mn ion homeostasis, with lipopolysaccharide biosynthesis linking to membrane-associated metabolism. Some terms like response to testosterone and regulation of cardiac hypertrophy appear less directly connected but may reflect broader regulatory contexts around membrane functions.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009103","count":5},{"id":"GO:0099132","count":5},{"id":"GO:0015991","count":5},{"id":"GO:0061092","count":4}]},{"hash":"2134137575989714384","title":"GPCR-cAMP-PLC Signaling in Heart and Retina","description":"The top GO terms center on GPCR pathways that activate adenylate cyclase and phospholipase C (dopamine and adrenergic signaling), with positive regulation of GTPase activity and cAMP-related signaling, plus development terms for heart and retina. This points to a cohesive signaling module where GPCR-driven cAMP/PLC pathways and GTPase regulation contribute to cardiac and retinal development and related cell proliferation.","confidence":"Medium","size":19,"edges":39,"triangles":29,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":17},{"id":"GO:0042493","count":17},{"id":"GO:0007507","count":16},{"id":"GO:0060041","count":16},{"id":"GO:0071880","count":16}]},{"hash":"696638875855620575","title":"UV-induced DNA damage response and nucleotide-excision repair","description":"The GO terms center on UV response (UV-B/UV-C) and repair of UV-induced lesions via nucleotide-excision repair, including transcription-coupled NER and pyrimidine dimer repair. Additional terms about transcription regulation and cell cycle may reflect downstream signaling during repair, and a few terms appear less directly connected. Overall, the dominant theme is UV-induced DNA damage response and repair.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061178","count":3},{"id":"GO:0040034","count":2},{"id":"GO:0010225","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0048597","count":2}]},{"hash":"705418885345890264","title":"Neural development and visual system signaling","description":"The top GO terms point to neural development and vision, including retina development, visual perception, axonogenesis, and corpus callosum development. Also present are signaling-related terms (ERK cascade, GTPase regulation, synapse assembly, phosphorylation), suggesting a cohesive module focused on neural growth and visual system function rather than a single isolated pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0060041","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0032092","count":4}]},{"hash":"1875959548533321304","title":"Neural development and signaling pathways","description":"This cluster is dominated by neural-related processes: nervous system development, synapse organization, myelination, and neurogenesis, plus key developmental signaling routes such as Hedgehog (smoothened), BMP signaling, and ROBO (Roundabout). While there are a few immune-related terms (lipopolysaccharide response and dsRNA response) present, the core theme is neural development and signaling, suggesting the proteins function together in nervous system formation and maturation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050808","count":13},{"id":"GO:0042552","count":11},{"id":"GO:0022008","count":11},{"id":"GO:0007224","count":11},{"id":"GO:0030513","count":11}]},{"hash":"2243235615695897976","title":"Vascular and neural signaling","description":"This cluster centers on GO terms tied to signaling pathways that regulate vascular functions (positive regulation of blood pressure and coagulation) and neural processes (locomotory behavior, visual learning, fear response), with related GPCR and Rho signaling themes. While metabolism (electron transport chain) and proliferation (cell population) appear, the dominant shared theme appears to be signaling networks that coordinate vascular and neural activities, with endocrine modulation (insulin secretion) as a broader context.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0035025","count":8},{"id":"GO:0007626","count":8}]},{"hash":"1521140470917809619","title":"Insect glycosylation and ECM biosynthesis","description":"The dominant GO terms cluster around glycosylation and extracellular matrix/proteoglycan biosynthesis (including chondroitin sulfate proteoglycans), plus cell adhesion and polarity in follicular epithelium, suggesting a module of glycoproteins involved in ECM formation and cell interactions in insects.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0005978","count":5},{"id":"GO:0016266","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0050650","count":4}]},{"hash":"710542595108920306","title":"Cranial neural crest development and axon pathfinding","description":"This cluster centers on neural crest\u2013derived neural development and axon guidance signals, with multiple terms for neural crest migration, axon pathfinding, nerve structure, and neuron projection. Lens morphogenesis and cranial-nerve organization reinforce developmental context in the head, while immune-related terms appear less central. Overall, the dominant theme is cranial neural crest\u2013driven development and neuronal pathfinding.","confidence":"High","size":19,"edges":85,"triangles":129,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":14},{"id":"GO:0036486","count":12},{"id":"GO:1902287","count":12},{"id":"GO:0021637","count":12},{"id":"GO:0097490","count":12}]},{"hash":"935456978057491663","title":"Cardiovascular Development and Metabolic Regulation","description":"The top GO terms cluster around heart development, blood pressure regulation, thermogenesis, and renin secretion, indicating a core theme of cardiovascular and systemic metabolic/endocrine regulation. Some terms (immune cell differentiation, ovarian follicle growth) are less central and may reflect broader or pleiotropic roles, but the dominant signal supports a cardiovascular/metabolic regulation theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":17},{"id":"GO:0031649","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0051930","count":17},{"id":"GO:0002305","count":17}]},{"hash":"2200303232631125571","title":"Immune signaling and organ morphogenesis","description":"This cluster shows immune-related signaling terms (negative regulation of NF-kappaB transcription factor activity, B cell receptor signaling, cellular response to interleukin-7) together with developmental/morphogenesis terms (skeletal muscle tissue development, distal tubule morphogenesis, renal sodium ion absorption) and general intracellular signaling. The mix suggests proteins involved in signaling pathways that influence both immune responses and tissue development across organs, rather than a single, narrow function. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0016477","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0072156","count":3},{"id":"GO:0070294","count":3}]},{"hash":"2107143009399867961","title":"Heart and Nervous System Development Signaling","description":"The proteins are enriched for heart and nervous system development along with broader multicellular development, suggesting roles in organogenesis. They also show involvement in key signaling cascades (ERK, Wnt, PI pathways) and processes like GTPase regulation and clustering of voltage-gated potassium channels, indicating coordinated developmental signaling in cardiovascular and neural contexts.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0007399","count":4}]},{"hash":"2144218462927019395","title":"Ubiquitin Pathway Regulation","description":"Top terms are dominated by ubiquitin-related functions (negative regulation of ubiquitin ligase activity; ubiquitin chain depolymerization; negative regulation of ER-associated ubiquitin-dependent protein catabolic process), indicating a shared focus on modulation of ubiquitin-dependent protein turnover, despite a few unrelated terms such as fibrinolysis or behavioral responses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903070","count":5},{"id":"GO:0042730","count":4},{"id":"GO:0035192","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0001662","count":4}]},{"hash":"548680285829293973","title":"Neuronal development and vesicle trafficking","description":"The cluster is enriched for brain development and multiple terms related to synaptic vesicle exocytosis, calcium-dependent exocytosis, and Golgi localization, indicating a shared role in neuronal development and vesicle trafficking/synaptic transmission. While there are some cell cycle terms present, the neural vesicle trafficking theme is the most representative.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0071260","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1544031507247241784","title":"GPCR Signaling in Neural and Vascular Development","description":"The top GO terms point to GPCR-mediated signaling pathways (PLC- and AC-activating) as central, with several terms tied to neural development (axonal fasciculation, synapse assembly) and vascular regulation (blood pressure, angiogenesis). The presence of an energy metabolism term (electron transport chain) appears less connected to the core theme, making GPCR-driven neural-vascular development a coherent label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0007200","count":9},{"id":"GO:0022900","count":8},{"id":"GO:0007189","count":8},{"id":"GO:0007413","count":8}]},{"hash":"1063562963535423228","title":"Craniofacial osteogenesis via BMP/SMAD signaling","description":"The top terms cluster around osteoblast differentiation, intramembranous ossification, roof of mouth development, and BMP/SMAD signaling, pointing to craniofacial bone formation processes; some terms like immune regulation are incidental noise relative to the dominant bone development theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032695","count":4},{"id":"GO:0071773","count":4},{"id":"GO:1903225","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0060392","count":4}]},{"hash":"29876258175186910","title":"Tissue development and ECM remodeling","description":"Top terms point to tissue development and ECM remodeling, e.g., biomineral tissue development, exocrine pancreas development, elastin catabolic process, and smooth muscle cell migration, with Wnt signaling also involved. While there are terms related to transcription regulation and immune components, the dominant signal is creation and remodeling of tissues and extracellular matrix, hence the label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0031214","count":4},{"id":"GO:0014909","count":3},{"id":"GO:0060309","count":3}]},{"hash":"2290610083401236117","title":"Developmental Morphogenesis","description":"This cluster centers on embryonic development and tissue shaping, with terms for hair follicle morphogenesis, left-right patterning, roof-of-mouth formation, cartilage development, placenta and endocrine system development, and EMT in heart cushion formation. A secondary signal includes transcriptional regulation and RNA splicing, suggesting broad developmental control rather than a single precise function. Overall theme: developmental morphogenesis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":5},{"id":"GO:0031069","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060021","count":4}]},{"hash":"667194747121787907","title":"Transposable elements and proviral integration","description":"The top GO terms center on genome mobility, including retrotransposition, DNA transposition, DNA integration, and proviral latency, suggesting proteins involved in transposable elements and genome integration. Some terms like acrosome assembly or epidermis development appear ancillary, indicating the core theme is mobility of genetic material rather than development; hence this label captures the main function of the cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001675","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0008544","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0075713","count":1}]},{"hash":"124817217291176153","title":"Spliceosome-driven RNA processing","description":"This cluster is dominated by GO terms for RNA splicing, alternative splicing regulation, and general mRNA processing, pointing to proteins involved in spliceosome function and mRNA maturation. While there are a few terms related to translation initiation and signaling, the core signal is RNA splicing/processing, making this label representative of the cluster\u2019s function.","confidence":"High","size":18,"edges":57,"triangles":75,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":5},{"id":"GO:0008380","count":4},{"id":"GO:0000381","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0008286","count":3}]},{"hash":"1860163271910126781","title":"Actin dynamics and cell polarity in development","description":"The top GO terms point to actin filament formation, polymerization, and cytoskeleton organization, coupled with epithelial polarity and tight junction assembly, plus developmental and neural-related processes (left/right patterning, synaptic depression, neuron regulation). This suggests a cohesive module centered on actin-driven remodeling and polarity guiding development in neural and epithelial contexts.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051639","count":3},{"id":"GO:0030041","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0043524","count":2}]},{"hash":"1062317547388207338","title":"Mitochondrial translation and respiration","description":"The top GO terms cluster around mitochondrial functions: mitochondrial translation, electron transport chain activity (NADH to ubiquinone and ubiquinol to cytochrome c), complex III assembly, and ATP synthesis coupled to electron transport. A couple of rRNA maturation and transcription antitermination terms also align with mitochondrial ribosome biology, supporting a cohesive theme of mitochondria-driven protein synthesis and energy production. A CNS development term appears less directly related and may be incidental. Overall, the cluster represents mitochondria-associated translation and oxidative phosphorylation.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:1902600","count":2},{"id":"GO:0034551","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0000462","count":2}]},{"hash":"2165395958911483507","title":"Regulation of transcription, translation, and Wnt signaling in neurons","description":"The cluster shows multiple regulatory GO terms: transcriptional regulation, negative regulation of translation, and positive regulation of the Wnt signaling pathway, plus positive regulation of dendritic spine morphogenesis, which points to a coordinated control of gene expression and signaling in neuronal development. The mitochondrial terms suggest supportive metabolic roles but are less central to the main regulatory theme. Overall, the visible pattern aligns with regulation of transcription/translation coupled to Wnt-driven neuronal growth and spine formation.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0017148","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0090263","count":1},{"id":"GO:2000055","count":1}]},{"hash":"546095235268389090","title":"B Cell Receptor and Adaptive Immune Signaling","description":"The cluster is dominated by GO terms for adaptive immune response and B cell\u2013related signaling, including B cell receptor signaling, Fc-epsilon receptor signaling, IL-2 production, and ERK cascade regulation, with complementary activation terms. These point to a coherent theme of B cell\u2013driven immune activation and signaling, with a few neuronal terms likely reflecting shared signaling components rather than core function. Overall, the primary signal is adaptive immune signaling centered on B cells.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0007417","count":8},{"id":"GO:1900042","count":8},{"id":"GO:0038095","count":8}]},{"hash":"1299727128384511745","title":"Ubiquitin-Proteasome System in circadian and NF-kB signaling","description":"This cluster centers on ubiquitin-dependent protein degradation and its regulatory outcomes, including SCF-mediated proteolysis, polyubiquitination and autoubiquitination, which influence circadian rhythm, NF-kappaB signaling, TNF pathways, histone turnover, and transcription by RNA Pol II. The unifying theme is the ubiquitin-proteasome system modulating protein stability and signaling across chromatin, clock, and inflammatory pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0000209","count":10},{"id":"GO:0042752","count":7},{"id":"GO:1903265","count":6},{"id":"GO:0051865","count":6}]},{"hash":"1499237944975335677","title":"Ubiquitin-Dependent Immune Signaling","description":"This cluster is defined by strong enrichment for ubiquitination and ubiquitin-dependent protein degradation (including K48- and K6-linked ubiquitination, autoubiquitination) alongside adaptive immune response and TNF signaling terms, with additional involvement in RIG-I pathway regulation and histone turnover. Together, these terms suggest a cohesive module of ubiquitin-regulated immune signaling proteins.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0016567","count":10},{"id":"GO:0051865","count":9},{"id":"GO:0070936","count":9},{"id":"GO:0002250","count":9}]},{"hash":"1532402810336680529","title":"Innate Immune and Cytoskeletal Signaling","description":"The proteins show enrichment for innate immune response and interferon signaling, apoptotic processes, and prominent cytoskeletal/trafficking pathways (Rho and small GTPase signaling) linked to cell migration, epithelial polarity, and development (Wnt signaling and heart development). This pattern points to a module where immune signaling intersects with cytoskeletal dynamics and morphogenesis, coordinating movement, polarity, and developmental signaling. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0007264","count":4}]},{"hash":"1989982895224557357","title":"Embryonic organogenesis and morphogenesis","description":"The cluster is dominated by GO terms related to the morphogenesis and development of various embryonic tissues and organs (palate, cochlea, lung, kidney ureteric bud, neural crest, skeletal muscle, pancreas, digestive tract). While a transcription regulation term appears, the prevailing theme is tissue and organ morphogenesis during development, suggesting a cohesive developmental cluster.","confidence":"High","size":18,"edges":71,"triangles":104,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0060021","count":12},{"id":"GO:0090103","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0090190","count":12}]},{"hash":"51510462487236034","title":"Embryonic neural and organ morphogenesis","description":"The cluster shows strong neural development signals (peripheral nervous system neuron development, motor neuron axon guidance) and multiple organ morphogenesis terms (inner ear development, uterus development, outflow tract morphogenesis, roof of mouth development), plus transcriptional regulation terms (transcription by RNA polymerase II and its negative regulation), suggesting a cohesive theme of embryonic development and transcription-controlled morphogenesis.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0090009","count":11},{"id":"GO:0008045","count":11},{"id":"GO:0000122","count":11},{"id":"GO:0035284","count":11}]},{"hash":"15154991240289564","title":"Splicing regulation and translation initiation control","description":"These proteins cluster around RNA processing and translation control: splicing regulation via the spliceosome (positive/negative and alternative splicing), ncRNA-mediated gene silencing, and assembly/initiation steps of translation (preinitiation complex, eIF4F, reinitiation). This suggests a cluster of RNA-processing regulators that influence both splicing and translation.","confidence":"Medium","size":18,"edges":22,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:1901407","count":10},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9}]},{"hash":"1846020371413620631","title":"Cardiac GPCR signaling and contraction regulation","description":"This cluster is driven by GO terms linking heart development, cardiac muscle contraction, and GPCR signaling processes (including acetylcholine receptor signaling, GPCR desensitization, and internalization), suggesting proteins that regulate cardiac function through GPCR pathways.","confidence":"High","size":18,"edges":47,"triangles":15,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0045444","count":8},{"id":"GO:0045988","count":6},{"id":"GO:0007213","count":6},{"id":"GO:0018107","count":6}]},{"hash":"1608956089705566853","title":"RNA and Protein Methylation","description":"This cluster is best explained by commonly shared methylation activities, including RNA methylation (rRNA methylation) and various protein methylations (N-terminal, lysine dimethylation, arginine dimethylation) and related mRNA stability regulation. Although there are some metabolic terms (antibiotic and cobalamin biosynthesis), the strongest cohesive signal is methyltransferase- or methylation-related functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0031167","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0090398","count":2}]},{"hash":"2199799865333249367","title":"TNF and NF-kB Immune Signaling","description":"Top GO terms indicate TNF-mediated signaling, innate immune response, T cell proliferation, regulation of canonical NF-kB signaling, and protein ubiquitination, plus cell cycle and transcriptional regulation. This suggests a cohesive cluster of cytokine-driven immune signaling with transcriptional and ubiquitin-regulatory components.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1635999518404728880","title":"Endosomal trafficking and epithelial development","description":"These proteins cluster around endosome localization/transport and epithelial development processes (tight junction assembly, hair follicle morphogenesis and proliferation), with concurrent roles in cell cycle regulation and GTPase signaling. A few neural-related terms are present but less representative, so the core theme centers on endocytic trafficking linked to epithelial/hair follicle development.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0036010","count":7},{"id":"GO:0070830","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0021762","count":7}]},{"hash":"2278004323021853825","title":"Developmental signaling and cytokine production","description":"The cluster shows strong representation of cytokine production (mast cell, GM-CSF) and multiple developmental processes (lung morphogenesis via epithelial proliferation, cartilage condensation, axonogenesis) along with hormone signaling (growth hormone receptor pathway, estrogen response) and sensory perception. This points to a theme of signaling coordinating development and immune/cytokine activity, rather than a single specific function. Confidence: Medium","confidence":"","size":18,"edges":81,"triangles":124,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":18},{"id":"GO:0060502","count":18},{"id":"GO:0007409","count":18},{"id":"GO:0070926","count":18},{"id":"GO:0045425","count":18}]},{"hash":"872008071904131506","title":"Ribosome Biogenesis and Translation Regulation","description":"The top terms cluster around ribosome assembly and protein synthesis: translation, small subunit assembly, and SSU rRNA maturation, with supporting signals from initiation-factor complex assembly. While a few terms involve apoptosis and splicing regulation, the dominant theme is ribosome biogenesis and translation control.","confidence":"High","size":18,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000028","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0097010","count":1}]},{"hash":"1038821442023875672","title":"Unknown","description":"The terms span cardiac development, hair/keratinization, astrocyte and axon biology, microtubule polarity, autophagy regulation, and immune activation, with no common pathway linking them and no edges in the cluster. This suggests a heterogeneous set rather than a coherent function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055015","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0014012","count":2},{"id":"GO:0031424","count":2}]},{"hash":"685403545188785081","title":"Mixed Catabolic Metabolism and Detoxification","description":"The top GO terms point to several distinct catabolic processes (cellulose, chlorophyll, triglyceride, diacylglycerol, 3-phenylpropionate) plus cellular oxidant detoxification, with no single dominant function and no edges connecting proteins. This suggests a broad, non-specific metabolic/enzymatic group rather than a cohesive, well-defined pathway, so the label captures a general theme rather than a precise function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":4},{"id":"GO:0015996","count":4},{"id":"GO:0098869","count":4},{"id":"GO:2000124","count":4},{"id":"GO:0019433","count":4}]},{"hash":"1131743864206815987","title":"Unknown","description":"The top GO terms span development (male gonad and multicellular organism development), immune responses (innate and adaptive), signal transduction (Rho, Wnt, FGFR), and other diverse processes such as centrosome maintenance, sodium channel clustering, and cell adhesion, with no single predominant function tying the cluster together.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0090263","count":3}]},{"hash":"380731625525257891","title":"ER-Golgi trafficking and growth signaling","description":"The cluster is dominated by GO terms for vesicle transport between the endoplasmic reticulum and Golgi (forward and retrograde), plus regulation of GTPase activity and phosphorylation signaling, and TORC1-related growth signaling. While transcription and cell division terms are present, the strongest recurring theme is ER-Golgi trafficking machinery coupled to growth-regulatory pathways, justifying this label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006890","count":3}]},{"hash":"2259359494566931324","title":"Brush border microvilli organization and intestinal absorption","description":"The top GO terms strongly point to the intestinal brush border: terminal web assembly and regulation of microvillus length along with actin filament dynamics indicate microvilli/cytoskeletal remodeling, while intestinal D-glucose absorption highlights a functional role in nutrient uptake. Additional terms on ER-Golgi transport and mRNA transport fit the polarized secretory/ trafficking context of enterocytes, with kinase activity regulation supporting signaling that governs polarity and cytoskeleton. Overall, the cluster appears to reflect proteins coordinating brush border structure and nutrient absorption in intestinal epithelium.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902896","count":5},{"id":"GO:0030042","count":4},{"id":"GO:0001951","count":4},{"id":"GO:0032532","count":4},{"id":"GO:0006888","count":3}]},{"hash":"1560432160036929033","title":"Cytoskeleton Remodeling and Mechanotransduction","description":"Top GO terms point to mechanotransduction and cytoskeletal remodeling: responses to mechanical stimulus, regulation of podosome and filopodium assembly, cell spreading and adhesion, and dendritic spine formation, which together suggest a cluster of proteins involved in sensing and adapting to mechanical cues and reorganizing the actin cytoskeleton. Some terms about hair follicle placode formation and bone resorption imply broader developmental and tissue-remodeling roles that can be linked to cell\u2013matrix interactions. A ribosomal export term appears less connected to the main theme, so the dominant signal is cytoskeleton/adhesion dynamics in response to mechanical factors.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0060789","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0090051","count":3}]},{"hash":"2106795813392332446","title":"NF-kappaB\u2013driven inflammatory signaling","description":"The cluster is dominated by terms related to canonical NF-kappaB signaling and inflammatory pathways (e.g., canonical NF-kappaB signal transduction, IL-1\u2013mediated signaling, regulation of NF-kappaB activity, and regulation of inflammatory response), indicating proteins that participate in NF-kB\u2013dependent inflammatory responses. Some peripheral terms (KIT signaling, endocytosis regulation) appear but do not override the central inflammatory NF-kB theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0070498","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0043123","count":2}]},{"hash":"656971084172530106","title":"Neurovascular and cardiac development with Rho signaling","description":"The terms cluster around nervous system development (brain development, nervous system development) and heart development, with vascular aspects like endothelial barrier establishment and remodeling, plus regulation of Rho signaling. The inclusion of synaptic vesicle priming also points to neuronal involvement, supporting a neurovascular-cardiac development theme driven by cytoskeletal signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0060313","count":4},{"id":"GO:0043314","count":4},{"id":"GO:0090557","count":3},{"id":"GO:0071260","count":3}]},{"hash":"2084926611379176115","title":"Cytoskeletal dynamics and adhesion in muscle and immune cells","description":"The top GO terms cluster around cytoskeletal remodeling and signaling (Rho pathway regulation, filopodium assembly, sarcomere organization, cell adhesion) with muscle-related (heart development) and immune-related (T and B cell) processes also present. Endosomal transport fits with trafficking linked to cytoskeletal changes. Together these suggest a cohesive theme of cytoskeletal dynamics and adhesion across muscle and immune contexts.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0007507","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0002291","count":3},{"id":"GO:0046847","count":3}]},{"hash":"1337843544487633017","title":"Systemic physiological regulation","description":"The cluster\u2019s top GO terms span immune cell movements (eosinophil chemotaxis, T cell differentiation), cardiovascular development and regulation (heart development, blood pressure, endothelial barrier), metabolic/thermogenic processes (heat generation, diet-induced thermogenesis), and signaling related to pain and neural pathways, plus reproductive regulation. This mix suggests a broad theme of systemic homeostasis and regulatory signaling across multiple organ systems rather than a single specific process, justifying a general label like systemic physiological regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048245","count":16},{"id":"GO:0007507","count":15},{"id":"GO:0031649","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0051930","count":15}]},{"hash":"860123232549733182","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":2},{"id":"GO:0015986","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006915","count":1}]},{"hash":"1216587435251100650","title":"Neural differentiation and signaling","description":"The top GO terms cluster around dendrite development and morphogenesis, neuronal stem cell maintenance, and ephrin receptor signaling, which together point to neural development and neuronal signaling pathways. While some terms (e.g., leaf development, keratinocyte differentiation) are non-neural, the dominant theme is neural differentiation and communication, making this label representative of the cluster\u2019s core function.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0009955","count":3},{"id":"GO:0097150","count":3},{"id":"GO:1902213","count":3},{"id":"GO:0050775","count":3},{"id":"GO:0048013","count":3}]},{"hash":"2037862908143343872","title":"Immune signaling and cell-cycle regulation","description":"The cluster is dominated by immune-related signaling terms (TNF-mediated signaling, T cell receptor signaling) and cell-cycle\u2013related processes (DNA replication, negative regulation of G2/M), with ubiquitin-related regulation (protein deubiquitination). The presence of both positive and negative regulation of canonical Wnt signaling further suggests modulation of signaling during proliferation. Together, these indicate coordination between immune signaling pathways and cell-cycle control, with ubiquitin-mediated regulation as a supporting mechanism.","confidence":"Medium","size":17,"edges":57,"triangles":140,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0033209","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0090090","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0051436","count":6}]},{"hash":"2143117896719356234","title":"Thermal and Pain Signaling with Vasopressin","description":"These terms cluster around temperature- and pain-related responses (thermoception, response to cold, response to pain) and vasopressin secretion, along with signaling pathways (calcium, cAMP) that feed into inflammatory and vascular processes (chemokine production, endothelial remodeling). The combination suggests an integrated neuroendocrine-immune-vascular response to thermal and nociceptive stimuli, with metabolic links to adipose tissue regulation. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030103","count":5},{"id":"GO:0071642","count":5},{"id":"GO:0050955","count":5},{"id":"GO:0098703","count":5},{"id":"GO:0071320","count":5}]},{"hash":"1902029779104675285","title":"Mitosis and chromatin assembly","description":"The strongest signals are cell division, microtubule dynamics, and CENP-A\u2013dependent chromatin assembly, pointing to mitotic chromosome organization. While there are also terms related to ER transport, protein quality control, metabolism, and development, these do not override the core mitotic theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051013","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0030433","count":3}]},{"hash":"830404847108276073","title":"Actin dynamics and cell adhesion in development","description":"This cluster is enriched for terms tied to the actin cytoskeleton and cell adhesion (microvillus and podosome assembly, Rho signaling, regulation of integrin activation, apical constriction), along with morphogenetic processes (neural plate morphogenesis, compound eye photoreceptor differentiation). The common thread appears to be actin-driven remodeling and adhesion during developmental tissue shaping; some terms like LDL clearance and glucose absorption are peripheral to this core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071320","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0030033","count":6},{"id":"GO:0071800","count":5},{"id":"GO:0033623","count":5}]},{"hash":"1446586913080029266","title":"Vertebrate organ development and transcription regulation","description":"The proteins cluster around diverse vertebrate organogenesis terms (roof of mouth, thyroid gland, dorsal spinal cord, olfactory placode, globus pallidus, inner ear, heart) and include both transcription by RNA polymerase II and negative regulation of transcription by RNA polymerase II, suggesting a set of factors coordinating organ development through transcriptional control.","confidence":"High","size":17,"edges":22,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0030878","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0007275","count":8}]},{"hash":"1919183647734326663","title":"Arabinogalactan protein glycosylation and seed mucilage biosynthesis","description":"The top terms cluster around plant cell wall glycoproteins, especially arabinogalactan proteins (AGPs) and their O-linked hydroxyproline glycosylation, along with seed mucilage biosynthesis and AGP-related polysaccharide pathways. This suggests a coherent plant-specific function in AGP glycosylation and seed coat mucilage formation, despite a few insect-related terms in the mix. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007299","count":3},{"id":"GO:0018258","count":3},{"id":"GO:0080147","count":3},{"id":"GO:0030311","count":3},{"id":"GO:0010493","count":3}]},{"hash":"753130129141478533","title":"Osmoprotectant and amino acid metabolism","description":"The top GO terms cluster around amino acid biosynthesis and catabolism (proline, lysine, arginine), as well as osmolyte-related pathways (ectoine, putrescine, GABA) and a flooding/stress response, pointing to osmotic stress adaptation coupled with amino acid turnover. Although antibiotic biosynthesis and retinol metabolism appear, the central theme appears to be osmoprotection and amino acid metabolism rather than a single specialized pathway.","confidence":"Medium","size":17,"edges":126,"triangles":549,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0017000","count":5},{"id":"GO:0055129","count":4},{"id":"GO:0009447","count":4},{"id":"GO:0009089","count":4}]},{"hash":"1065218633238949047","title":"Cell Cycle and RNA Processing Regulation","description":"This cluster is enriched for mitotic/cell cycle terms (mitotic cell cycle, cell division, anaphase-promoting complex-dependent catabolic process) and RNA-related processes (mRNA splicing via spliceosome, translation initiation/reinitiation), plus ubiquitination and chromatin modification signals. Together, these suggest a core function in coordinating cell division with gene expression control at both RNA and protein levels. Some terms like brain development and cadmium ion response are peripheral or pleiotropic and may reflect broader regulatory roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":10},{"id":"GO:0070979","count":7},{"id":"GO:0007420","count":7},{"id":"GO:2001162","count":7}]},{"hash":"1283018771424720479","title":"Thermogenic GPCR\u2013cAMP Signaling","description":"Based on the top GO terms, the cluster centers on temperature- and thermogenesis-related responses (diet-induced thermogenesis, cellular response to temperature) with strong representation of GPCR- and adenylyl cyclase\u2013mediated signaling (activation of adenylate cyclase, GPCR signaling) and prostaglandin-responsive pathways, plus downstream vascular/secretory processes (blood pressure regulation, saliva secretion, coagulation). This suggests a coherent module where thermogenic/metabolic signaling via GPCR\u2013cAMP and prostaglandins influences vascular and secretory functions. ","confidence":"Medium","size":17,"edges":6,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9}]},{"hash":"1775075582736560382","title":"Cardiac Development and Calcium-Dependent Contractility","description":"The cluster is dominated by GO terms tied to heart development, regulation of cardiac muscle contraction, and calcium signaling (calcium binding and calcium release control), pointing to a cardiac function module with emphasis on calcium-dependent contraction. Some terms are broader or obsolete, but the core theme centers on heart development and calcium-mediated contractile regulation.","confidence":"High","size":17,"edges":6,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0005513","count":4},{"id":"GO:0010881","count":4}]},{"hash":"626878786717366620","title":"Developmental morphogenesis and signaling","description":"The cluster features GO terms related to tissue development and morphogenesis (lung development, cartilage condensation), neural development (axonogenesis, pain perception), and signaling processes (estrogen response, growth hormone signaling, mast cell/GM-CSF cytokine production). The common thread is broad developmental remodeling coupled with hormonal and immune signaling, rather than a single specific function, so this label captures the overarching theme without overfitting to any one term.","confidence":"Medium","size":17,"edges":32,"triangles":8,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":17},{"id":"GO:0060502","count":17},{"id":"GO:0007409","count":17},{"id":"GO:0070926","count":17},{"id":"GO:0045425","count":17}]},{"hash":"1837915277338568037","title":"Golgi-ER Transport and COPII Vesicle Budding","description":"The top GO terms cluster around vesicle trafficking between the ER and Golgi, including COPII vesicle budding and Golgi-to-plasma membrane transport, pointing to the secretory pathway. Some terms relate to growth or cilium assembly, but the dominant signal is intracellular vesicle transport in the early secretory pathway.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006893","count":3},{"id":"GO:0032258","count":3}]},{"hash":"2120877275178761484","title":"ECM remodeling and cell adhesion","description":"The cluster\u2019s top GO terms cluster around extracellular matrix organization (collagen fibril organization), proteolysis, and regulation of bone resorption, along with integrin-mediated signaling and cell adhesion, suggesting a shared function in cell\u2013matrix interactions and ECM remodeling. While some terms touch on nerve function and immune cell trafficking, the dominant theme is adhesion to and remodeling of the extracellular matrix across contexts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":5},{"id":"GO:0019226","count":4},{"id":"GO:0045779","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0045780","count":3}]},{"hash":"153226762377655667","title":"Glutamatergic synaptic transmission and vesicle priming","description":"This cluster is best described by its strong representation of neuronal synaptic terms, particularly glutamatergic transmission (GO:0005249) and synaptic vesicle priming (GO:0016082), suggesting a focus on synaptic function. Other terms present (e.g., ERK signaling regulation, VEGF pathway regulation, glycogen biosynthesis, transcription) appear more peripheral and do not cohere as strongly with the core synaptic theme, making a precise broader function less clear.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030948","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0070373","count":3},{"id":"GO:0045725","count":3},{"id":"GO:0045943","count":2}]},{"hash":"764157525386220938","title":"Adaptive immune activation and B cell maturation","description":"The top GO terms cluster around adaptive immune response, cytokine signaling (IL-2, IL-7), B cell affinity maturation, and hematopoiesis, with hints of actin cytoskeleton remodeling (Rho/Rac signaling, lamellipodium assembly) typical of immune cell activation and migration. This supports a cohesive theme of lymphocyte activation and B cell development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0098761","count":3}]},{"hash":"1531828587230060573","title":"KIT-Driven Development and Immune Signaling","description":"Top GO terms converge on KIT signaling (GO:0038109) and its roles in melanocyte differentiation, mast cell cytokine production, hematopoietic stem cell migration, and antigen processing, indicating a KIT-centered module influencing development and immune responses. Additional terms for neural crest migration and nerve impulse transmission support a broader developmental context linked to KIT pathways. Overall, the cluster appears to reflect KIT-mediated signaling coordinating lineage development and immune function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032762","count":1},{"id":"GO:0030318","count":1},{"id":"GO:0038109","count":1},{"id":"GO:1903465","count":1},{"id":"GO:0042590","count":1}]},{"hash":"2192809403864127899","title":"Embryonic Neural and Organ Development","description":"The top terms cluster around broad developmental processes across tissues\u2014brain development (midbrain, telencephalon), left-right patterning, visual perception, and organogenesis (skeletal muscle, pancreatic cell development). This points to a general set of proteins involved in embryonic development and tissue morphogenesis rather than a single pathway, hence a label of embryonic neural and organ development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0003309","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0032298","count":3}]},{"hash":"1396062934480421131","title":"Embryonic development and morphogenesis","description":"This cluster centers on GO terms linked to embryonic and tissue development across multiple lineages, including placenta/trophoblast differentiation, endocrine pancreas development, cartilage morphogenesis, and heart-related EMT/left-right patterning, suggesting a shared role in developmental processes and tissue formation. Ubiquitination and spliceosome-mediated mRNA processing likely reflect general regulatory layers supporting these developmental programs.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0035270","count":2}]},{"hash":"524891208138636267","title":"Neural and Gonadal Development","description":"The dominant GO terms point to development of nervous system structures (spinal cord, forebrain) and gonadal tissues (seminiferous tubules, male gonad), with supporting cellular processes like microtubule dynamics and vesicle transport that aid tissue formation and growth.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0072520","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0007018","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0006890","count":4}]},{"hash":"2112994608760603101","title":"Mitochondrial lipid metabolism and GTPase signaling","description":"The cluster centers on mitochondrial lipid biosynthesis (phosphatidic acid, cardiolipin) and lipid catabolism, along with signals for mitochondrial fusion and GTPase/Rap signaling. This points to a cohesive function of lipid metabolism tied to small GTPase\u2013mediated regulatory pathways, with a few broader or context-specific terms appearing as additional roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006654","count":4},{"id":"GO:0016042","count":3},{"id":"GO:0032049","count":3},{"id":"GO:0010636","count":3},{"id":"GO:0008283","count":3}]},{"hash":"505311685986439453","title":"RNA splicing, decay, and chromatin regulation","description":"The strongest signals are spliceosome-related processes (mRNA splicing, spliceosomal assembly) and mRNA turnover (P-body assembly, deadenylation-dependent decapping), plus rRNA maturation and transcription termination, pointing to a core RNA processing and gene expression regulation function. The presence of pericentric heterochromatin formation and hair cycle terms suggests additional chromatin-related regulation, but the dominant theme is RNA metabolism.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":14},{"id":"GO:0000245","count":13},{"id":"GO:1990141","count":12},{"id":"GO:0033962","count":12},{"id":"GO:0009737","count":12}]},{"hash":"2255405498594798547","title":"Gene expression and cell fate regulation","description":"The Top Terms point to multiple layers of regulation\u2014negative regulation of DNA binding, protein deubiquitination, regulation of apoptotic processes, mRNA stability, and translation initiation\u2014suggesting a cohesive theme of controlling gene expression and cell fate at transcriptional and post-transcriptional levels, plus protein turnover. Some terms (plant-type hypersensitive response, host-mediated activation of viral genome replication) seem peripheral or cross-annotated, but the core cluster appears to center on regulatory networks rather than metabolism. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043392","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0042981","count":3},{"id":"GO:1903679","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1916843528016447233","title":"RNA Splicing Regulation and Circadian Rhythm","description":"The proteins are enriched for GO terms related to RNA splicing and mRNA processing (splicing, spliceosome regulation, mRNA stabilization, splice site recognition). This suggests a core function in RNA maturation and regulation. Additionally, circadian rhythm terms (circadian rhythm and positive regulation of circadian rhythm) appear, indicating a potential link between RNA processing and circadian control. There are a few apoptosis and transcription initiation terms, but they are less prominent, so the label centers on splicing regulation with a circadian association.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0048255","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0006376","count":2}]},{"hash":"1902141459581919411","title":"Diverse membrane transporters","description":"The cluster shows a clear pattern of transmembrane transport across a wide range of substrates (arabinose, phosphate, fucose, nitrite, xenobiotics, galactose, vitamin, nitrate, sialic acid) plus a vesicular neurotransmitter loading term, indicating proteins that function in transporting diverse molecules across membranes. This shared theme supports labeling as broad substrate membrane transporters.","confidence":"High","size":16,"edges":19,"triangles":1,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015751","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015707","count":5},{"id":"GO:0006855","count":5}]},{"hash":"721531521947538993","title":"RNA Processing and Spliceosome Regulation","description":"The proteins cluster around RNA maturation and handling: primary miRNA and siRNA processing, ncRNA-mediated gene silencing, regulation of alternative mRNA splicing via the spliceosome, general and poly(A)+ mRNA export, and helicase activity regulation. A secondary tie to ribosome biogenesis is common with RNA processing factors in the nucleus. Together, this suggests a cohesive RNA processing/export/splicing module rather than unrelated functions.","confidence":"High","size":16,"edges":17,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031053","count":2},{"id":"GO:0030422","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1662998938217958189","title":"Ubiquitination and TNF/NF-\u03baB Signaling Regulators","description":"Proteins in this cluster are dominated by GO terms related to ubiquitin-dependent protein degradation (ubiquitin-dependent protein catabolic process, autoubiquitination, various ubiquitin linkages like K48/K63/K6) and regulation of TNF-mediated signaling and NF-\u03baB activation (I-kappaB phosphorylation). This pattern strongly points to a group of factors involved in tagging substrates for degradation and modulating inflammatory signaling pathways, especially TNF and NF-\u03baB. High confidence that the label reflects the cluster\u2019s function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0051865","count":9},{"id":"GO:0070534","count":8},{"id":"GO:1903265","count":8},{"id":"GO:0070936","count":7}]},{"hash":"2268745007864898957","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0045087","count":7},{"id":"GO:0051607","count":7},{"id":"GO:0007014","count":6},{"id":"GO:0061158","count":6}]},{"hash":"1671910863885481073","title":"Ubiquitin-ERAD and Autophagy","description":"This cluster links ubiquitin-related processing (deubiquitination, autoubiquitination, ERAD) with autophagy pathways (autophagosome maturation, reticulophagy, mitophagy) and includes microtubule cytoskeleton organization, pointing to a coordinated protein quality control and organelle turnover network.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0000226","count":6},{"id":"GO:1903265","count":5},{"id":"GO:0051865","count":5}]},{"hash":"433259000784231806","title":"Steroid and lipid metabolism with stress and xenobiotic processing","description":"This cluster centers on steroid hormone biosynthesis/metabolism (testosterone, progesterone, and androgens), cholesterol and bile acid pathways, and prostaglandin production, complemented by xenobiotic catabolic processes and cellular stress responses. The convergence on lipid-derived hormonal pathways plus detoxification under stress supports a cohesive functional theme.","confidence":"High","size":16,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":7},{"id":"GO:0042738","count":5},{"id":"GO:0043124","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0001516","count":4}]},{"hash":"1925909559204706768","title":"Unknown","description":"The GO terms span very different processes from development (multicellular organism development, trophoblast giant cell differentiation) to immune signaling (T cell homeostasis, JNK and TGF-beta\u2013related responses), vitamin D response, ubiquitin-mediated degradation, telomere maintenance, and spindle assembly, with no single unifying function or pathway linking the proteins. There are no edges or clustering structure to infer a cohesive role, so a meaningful, specific label cannot be assigned at this time.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0033280","count":3}]},{"hash":"153771970761001253","title":"Embryonic Organ Development Regulators","description":"The top GO terms span multiple organ and embryonic development processes (pituitary, inner ear, uterus, heart outflow tract, gonads, palate, primitive streak, tooth formation) and include negative regulation of transcription by RNA Pol II. This suggests a protein group enriched for developmental regulation across organs, not restricted to a single tissue, hence a label like Embryonic Organ Development Regulators.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0021983","count":8},{"id":"GO:0048839","count":7},{"id":"GO:0060065","count":6},{"id":"GO:0003148","count":6}]},{"hash":"1557602175882275183","title":"Developmental signaling and cell migration regulators","description":"The cluster\u2019s top GO terms center on regulation of multiple signaling pathways (Rho, Hedgehog, synaptic vesicle exocytosis, T cell signaling) and developmental processes across tissues (brain, kidney, muscle, mast cells). This points to proteins that modulate signaling in development and cell movement rather than a single pathway, so a broad label of developmental signaling and cell migration regulators fits best.","confidence":"Medium","size":16,"edges":109,"triangles":426,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0031384","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0010796","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0035023","count":5}]},{"hash":"648564786865391296","title":"Tissue Morphogenesis and Neural Signaling","description":"The top GO terms cluster around developmental processes across multiple tissues (heart, salivary gland, nephric duct, photoreceptors) and include neural-related functions (transmission of nerve impulse, axonogenesis, trans-synaptic signaling, astrocyte differentiation). The common theme is morphogenesis and maturation during development, with emphasis on neural differentiation/signaling, plus ECM remodeling (collagen fibril organization). This supports a label capturing both tissue morphogenesis and neural development aspects without overfitting to a single tissue.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007507","count":11},{"id":"GO:0071372","count":11},{"id":"GO:0007432","count":11},{"id":"GO:0072178","count":11},{"id":"GO:0019226","count":11}]},{"hash":"829163623015825239","title":"Proteostasis and ER Stress Response","description":"The cluster is dominated by terms tied to proteostasis: unfolded protein response, ER stress signaling, chaperone-assisted refolding, and regulation of translation during stress, plus redox balance and membrane targeting\u2014pointing to a cohesive proteostasis/ER-stress module. A couple of outlier terms (DNA replication, Hedgehog pathway modulation) are present but do not define the main theme.","confidence":"High","size":16,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0036494","count":8},{"id":"GO:0006469","count":8},{"id":"GO:0070389","count":8},{"id":"GO:0006986","count":8},{"id":"GO:0031204","count":7}]},{"hash":"1218527368407901141","title":"Neurodevelopment and Organogenesis Signaling","description":"The terms cluster around nervous system development and neurogenesis, with core developmental signaling pathways such as Smoothened (Hedgehog) and Roundabout (Slit-Robo). Additional terms point to organogenesis and tissue-wide signaling (kidney and vagina development, angiogenesis), plus apoptosis and proliferation regulation, suggesting a broad developmental signaling module rather than a single specific process.","confidence":"Medium","size":16,"edges":111,"triangles":443,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0007224","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0001822","count":9}]},{"hash":"134804010437274638","title":"Neurodevelopment and Inner Ear Development","description":"This cluster is dominated by terms tied to neural and sensory organ formation, including neuron development, axonogenesis, and inner ear development, along with broader multicellular organism development. The presence of these neuron/ear-focused terms suggests a cohesive theme around neural/sensory system development, with additional (but generic) signals like DNA replication and mitotic cell cycle reflecting proliferative states typical in developmental contexts. Overall, the proteins are best described as involved in neurodevelopment and sensory organ (ear) formation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:0019233","count":8},{"id":"GO:0048666","count":8},{"id":"GO:0032435","count":8},{"id":"GO:0006349","count":8}]},{"hash":"776443660732731176","title":"Mitochondrial stress and apoptotic regulation","description":"This cluster centers on mitochondrial processes: depolarization, regulation of ATP metabolism, and mitochondrial outer membrane permeabilization in apoptotic signaling. While a couple terms relate to nuclear processes or erythrocyte differentiation, the dominant signals point to mitochondrial perturbation and apoptosis control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0051882","count":1},{"id":"GO:0006783","count":1},{"id":"GO:1903214","count":1},{"id":"GO:1903578","count":1}]},{"hash":"1519285670802782330","title":"Ribosome biogenesis and translation","description":"The cluster centers on ribosome production and function, with terms for ribosome biogenesis, large subunit biogenesis/export, rRNA maturation, and cytoplasmic translation/termination, indicating a cohesive set of proteins involved in ribosome assembly and RNA processing, plus broader links to mRNA export and cell division.","confidence":"High","size":16,"edges":117,"triangles":519,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0006406","count":4},{"id":"GO:0042273","count":4},{"id":"GO:0000055","count":4}]},{"hash":"1778834195979317176","title":"Endosomal sorting and ubiquitination","description":"The top GO terms include late endosome to vacuole transport via multivesicular body sorting pathway and protein ubiquitination, which are central to intracellular trafficking and protein turnover. Additional terms for microtubule organization and autophagosome maturation suggest coordination between trafficking and cytoskeletal dynamics, reinforcing a theme of endosomal routing and related pathways. Some transcriptional and mating signaling terms may reflect broader regulatory roles, but the dominant signal connects to endosomal sorting and ubiquitin-mediated transport.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032511","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006355","count":2}]},{"hash":"383209978941114124","title":"Osteoimmune signaling and bone remodeling","description":"This cluster centers on immune-related processes\u2014innate response, phagocytosis, T cell costimulation, B cell activation and signaling, and complement activation\u2014together with bone ossification/remodeling and cell adhesion. The combination points to osteoimmunology: immune activity closely linked to bone remodeling and cell-cell adhesion in bone-immune interfaces.","confidence":"High","size":16,"edges":83,"triangles":187,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0006958","count":11},{"id":"GO:0007156","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0019226","count":9}]},{"hash":"1792980318226295554","title":"Developmental Transcriptional Regulation & Chromatin Remodeling","description":"The top GO terms point to developmental processes (neural fold formation, atrial septum morphogenesis, skeletal development) alongside chromatin remodeling and transcriptional regulation (chromatin remodeling, nucleosome disassembly, miRNA transcription). This suggests the cluster comprises factors that control gene expression during development, via chromatin dynamics and transcriptional regulation. Some terms (IgA isotype switching, host-mediated viral transcription, glucose signaling) appear less tightly connected, indicating added and pleiotropic roles, but the core theme remains developmental transcription control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001842","count":3},{"id":"GO:0003149","count":3},{"id":"GO:0003289","count":3},{"id":"GO:0048298","count":3},{"id":"GO:0043044","count":3}]},{"hash":"707819996833139103","title":"Pain, Temperature, and Drug-Response Signaling","description":"The proteins cluster around sensory modalities and stimulus-induced responses (pain perception, temperature/thermogenesis, and drug- or behavior-related responses such as to cocaine and morphine), plus vision. While there are some broader terms like heart development and macrophage chemotaxis, the dominant pattern is sensory perception and stimulus-driven signaling, suggesting a neurosensory/drug-response module.","confidence":"Medium","size":16,"edges":71,"triangles":115,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0042391","count":10},{"id":"GO:0007601","count":10}]},{"hash":"1816760088225514435","title":"Neural signaling and sensory perception","description":"The cluster shows strong ties to nervous system function, with GO terms for visual perception, sensory perception of pain, and behavioral/drug responses (to cocaine and morphine). It also includes signaling pathway terms such as ERK1/2 cascade and positive regulation of GTPase activity, suggesting active signal transduction in neurons. A few terms (heart development, saliva secretion) are less central and could reflect broader expression or annotations, but the dominant pattern points to neural signaling and sensory responses.","confidence":"Medium","size":16,"edges":112,"triangles":457,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0046541","count":12},{"id":"GO:0010759","count":12},{"id":"GO:0048148","count":12}]},{"hash":"920316338776165731","title":"Developmental Signaling and Morphogenesis","description":"These terms point to regulatory signaling events that drive development and tissue formation (lung morphogenesis, cartilage condensation, axon growth) and hormonal responses (estrogen, growth hormone). The presence of immune cytokine production and pain perception reflects broader signaling roles, suggesting a common theme of developmental signaling and morphogenesis across systems.","confidence":"Medium","size":16,"edges":117,"triangles":520,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":16},{"id":"GO:0060502","count":16},{"id":"GO:0007409","count":16},{"id":"GO:0070926","count":16},{"id":"GO:0045425","count":16}]},{"hash":"120424838175907910","title":"Synaptic vesicle trafficking and SNARE assembly","description":"This cluster is dominated by GO terms for ER-Golgi and intra-Golgi transport, Golgi ribbon formation, SNARE complex assembly, vesicle fusion with the Golgi, and exocytic insertion of neurotransmitter receptors at the postsynaptic membrane, all pointing to vesicle trafficking and SNARE-mediated fusion in neurons. The presence of long-term potentiation supports a neuronal, synaptic function. Lipid metabolism terms may reflect membrane lipid regulation related to trafficking but do not define the primary theme.","confidence":"High","size":16,"edges":93,"triangles":272,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0006891","count":6},{"id":"GO:0098967","count":6},{"id":"GO:0048280","count":6},{"id":"GO:0090161","count":6}]},{"hash":"1545404345356181456","title":"Autonomic GPCR-cAMP signaling in pain and thermoregulation","description":"This cluster is enriched for GO terms tied to GPCR signaling that activates adenylate cyclase, influencing blood pressure regulation, pain perception, morphine response, thermogenesis, fear behavior, and saliva secretion. The combination points to autonomic nervous system signaling and linked behavioral/thermoregulatory responses rather than a single canonical pathway.","confidence":"Medium","size":16,"edges":7,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0007190","count":9},{"id":"GO:0002024","count":8}]},{"hash":"2281510098365282451","title":"Neuronal Synaptic Signaling and Plasticity","description":"The terms cluster around excitatory synaptic transmission, calcium signaling, receptor clustering, and learning-related plasticity (long-term memory and long-term synaptic depression), indicating a coherent theme of neuronal communication and synaptic remodeling; a few outliers (immune and muscle-related terms) are less central but do not override the core neuronal signal interpretation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":4},{"id":"GO:0006816","count":4},{"id":"GO:0001975","count":4},{"id":"GO:0007616","count":4},{"id":"GO:0035176","count":4}]},{"hash":"804631564319445430","title":"Multitissue organogenesis and immune signaling","description":"This cluster includes GO terms spanning development and morphogenesis across multiple tissues (hair follicle, bone, ureteric bud, spermatogenesis) as well as vascular development (angiogenesis regulation, endothelial proliferation) and immune-related processes (dendritic cell antigen processing/presentation and type 2 immune responses). The common thread is broad organogenesis and tissue maturation with ancillary immune signaling roles, rather than a single, specific pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":2},{"id":"GO:0002830","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0002606","count":2},{"id":"GO:0007283","count":2}]},{"hash":"2207168023910608067","title":"Developmental Morphogenesis and Signaling","description":"These GO terms cluster around developmental processes across tissues: morphogenesis in lung epithelium and cartilage, neuronal development via axonogenesis and sensory perception, and broad signaling roles including estrogen response, growth hormone signaling, and cytokine production. The combination suggests proteins acting within developmental signaling networks that coordinate tissue formation and sensory/immune-hormonal responses, rather than a single mature pathway.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032762","count":16},{"id":"GO:0060502","count":16},{"id":"GO:0007409","count":16},{"id":"GO:0070926","count":16},{"id":"GO:0045425","count":16}]},{"hash":"1770447479447242936","title":"Actin Cytoskeleton Remodeling and Filopodium/Podosome Formation","description":"The cluster is dominated by GO terms related to actin cytoskeleton dynamics, including filopodium and podosome assembly, positive regulation of actin polymerization, and small GTPase\u2013mediated signaling. This suggests a cohesive module of proteins that regulate actin remodeling, adhesion, and protrusive structures, with some additional terms likely representing broader or incidental functions. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071803","count":6},{"id":"GO:0046847","count":6},{"id":"GO:1900026","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1643072259424258482","title":"Inflammation-driven vascular regulation and thermogenesis","description":"The dominant GO terms cluster around inflammatory response, coagulation, vasoconstriction, and blood pressure regulation, with additional terms for temperature and pain perception and a metabolic (ETC) aspect. Together they suggest a module of immune-vascular signaling coupled to thermogenic responses, hence this label. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0007596","count":6},{"id":"GO:0032496","count":5}]},{"hash":"1714532219856913234","title":"Mitochondrial and Postsynaptic Assembly","description":"Top GO terms indicate both mitochondrial processes (protein import into mitochondrial matrix; complex IV assembly) and postsynaptic organization (postsynaptic membrane assembly; PSD-95 clustering; regulation of excitatory postsynaptic potential), with some behavioral terms present. The dominant signal points to a set of proteins involved in coordinating energy metabolism with synaptic structure, despite some noise from unrelated terms. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097171","count":2},{"id":"GO:0010107","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0097104","count":1}]},{"hash":"1642680999931798087","title":"Unknown","description":"The GO terms are a scattered mix of neural signaling (synapse organization, cholinergic transmission, learning), metabolism (carbohydrate metabolic process, cholesterol ester hydrolysis), and development (osteoblast development). There isn\u2019t a single cohesive function tying all proteins together, so the cluster is best labeled Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0005975","count":5},{"id":"GO:0007612","count":4},{"id":"GO:0042136","count":4},{"id":"GO:0002076","count":4},{"id":"GO:0050808","count":4}]},{"hash":"2118575961662459002","title":"Meiosis and Synaptonemal Complex Assembly","description":"The top GO terms are dominated by meiotic processes (microsporogenesis, synaptonemal complex assembly, meiotic chromosome separation) and general cell division, indicating a cohesive theme of meiosis and germ-cell development. Outlier terms related to odontogenesis and immune signaling (TNF, IL-6) may reflect annotation noise or broader regulatory connections.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009556","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007130","count":2},{"id":"GO:0042475","count":2},{"id":"GO:0043547","count":2}]},{"hash":"45986166061789085","title":"Rho GTPase\u2013driven cytoskeletal remodeling and trafficking","description":"The top GO terms cluster around regulation of Rho GTPase signaling and actin dynamics (microspike assembly) with associated intracellular transport and endocytic recycling processes. This suggests a common theme of small GTPase\u2013mediated cytoskeletal remodeling coupled with vesicle trafficking, even though some terms (e.g., apoptotic process, IL-2 production) may reflect broader context or co-annotation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043547","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0006915","count":3}]},{"hash":"558287825837426405","title":"Rho GTPase signaling and cytoskeletal remodeling","description":"The top GO terms cluster around regulation of Rho protein signal transduction, activation of GTPase activity, and lamellipodium assembly, which point to cytoskeletal reorganization driven by Rho GTPases. Additional terms involve growth-factor signaling (VEGF, insulin receptor), GPCR signaling, and development (heart and midbrain morphogenesis). This combination suggests a coherent theme where Rho-mediated signaling coordinates cytoskeletal dynamics and developmental signaling during morphogenesis. Confidence: High","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:1904693","count":9},{"id":"GO:0048009","count":9},{"id":"GO:0090630","count":9},{"id":"GO:0030032","count":9}]},{"hash":"1802886475696451671","title":"NF-kB and Ca2+-Mediated Signaling Cluster","description":"The terms cluster around intracellular signaling cascades, notably NF-kappaB and calcineurin-NFAT pathways, plus phosphatidylinositol-mediated signaling and calcium-related regulation. This suggests a core theme of signal transduction and its regulation in development and stress responses, with other terms like digestion and heart development indicating broader roles in physiological signaling. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":5},{"id":"GO:0001666","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0048015","count":4},{"id":"GO:0007586","count":4}]},{"hash":"1818460971590321243","title":"Mitochondrial Transporters and Membrane Potential","description":"The cluster is dominated by GO terms tied to transport across the mitochondrial membranes (ADP, nucleotides, deoxynucleotides, CoA, phosphate, pyrimidine nucleotides, ornithine) and to regulation of mitochondrial membrane permeability and membrane potential, along with apoptotic mitochondrial changes. This suggests a coherent set of inner-membrane transport proteins involved in energy/metabolite exchange and membrane potential regulation; the anomalous \"female pregnancy\" term is likely noise. ","confidence":"High","size":16,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":14},{"id":"GO:0035435","count":14},{"id":"GO:0007565","count":14},{"id":"GO:0046902","count":14},{"id":"GO:0000066","count":14}]},{"hash":"1055554919886785245","title":"Mitotic proliferation and neural/hematopoietic development","description":"The top GO terms point to the core processes of cell division (mitotic cell cycle, cell population proliferation), regulated protein turnover (SCF-dependent ubiquitin\u2013proteasomal degradation, K11-linked ubiquitination), and cytoskeletal dynamics (microtubule-based movement, stress fiber assembly), together with developmental pathways such as hemopoiesis, spinal cord development, and axon extension. This pattern suggests a cluster of proteins involved in proliferative growth, cytoskeletal remodeling, and developmental signaling in neural and hematopoietic contexts, rather than a single tightly connected pathway. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0030097","count":3},{"id":"GO:0021510","count":2}]},{"hash":"457278395382678343","title":"Multi-tissue development and differentiation","description":"The GO terms point to developmental and differentiation processes across multiple tissues: skin development and hair follicle morphogenesis (skin-related structures), cerebellar granule cell differentiation (neural development), and ventricular cardiac muscle cell development with SA node signaling (heart development). There are also general processes like cell migration and GTPase regulation that commonly participate in development. The terms are diverse but collectively emphasize tissue-specific development rather than a single, cohesive pathway, supporting a broad \u201cmulti-tissue development\u201d theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0043588","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0098907","count":3}]},{"hash":"1499388068849026510","title":"Filopodium formation and GTPase signaling","description":"The cluster is enriched for filopodium assembly, positive regulation of cell spreading, and small GTPase\u2013mediated signaling, plus cell polarity maintenance, all pointing to actin cytoskeleton remodeling and protrusive shape changes. The inclusion of synaptic transmission (GABAergic) suggests a neuronal context where such cytoskeletal dynamics are crucial for synapse formation and maintenance, reinforcing a cohesive theme of actin-driven cell motility and polarity regulation.","confidence":"High","size":15,"edges":21,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":13},{"id":"GO:0007264","count":13},{"id":"GO:0051489","count":13},{"id":"GO:0046847","count":13},{"id":"GO:0071963","count":13}]},{"hash":"1875679855935211187","title":"RNA processing and viral translation control","description":"The cluster is dominated by post-transcriptional RNA regulation terms: spliceosome-mediated splicing control, ncRNA-mediated gene silencing, mRNA stability under stress, mRNA export, and translation initiation/termination processes including IRES-dependent viral translation and translation reinitiation. This points to a cohesive function bridging RNA processing with translation, notably in viral contexts and eIF4F complex assembly.","confidence":"High","size":15,"edges":38,"triangles":23,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":11},{"id":"GO:0031047","count":11},{"id":"GO:0010610","count":11},{"id":"GO:0097010","count":10},{"id":"GO:0075525","count":10}]},{"hash":"2203077258333696695","title":"Rod photoreceptor development and outer segment localization","description":"The top GO terms point strongly to retina/photoreceptor processes, especially retinal rod cell development and protein localization to the photoreceptor outer segment, suggesting the cluster centers on rod photoreceptor maturation and outer segment biogenesis. Other terms like microtubule anchoring and ubiquitination may reflect component trafficking and turnover within photoreceptors, while cadmium/interferon responses could be general cellular processes accompanying stress in these cells. Overall, the retina/photoreceptor theme fits best.","confidence":"Medium","size":15,"edges":19,"triangles":0,"max_degree":7,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006463","count":3},{"id":"GO:0046548","count":3},{"id":"GO:0046661","count":3}]},{"hash":"2167751343380358163","title":"Cellular stress response and cytoskeletal regulation","description":"Based on the top GO terms, the proteins are implicated in stress responses (heat regulation, stress-activated MAPK cascade, gamma radiation response, ROS metabolism), as well as cytoskeletal dynamics and transport (microtubule polymerization/depolymerization, intracellular transport, muscle contraction). Supportive protein homeostasis activity (deubiquitination, protein stabilization) suggests these proteins help maintain protein quality under stress. The combination of signaling, cytoskeletal control, and quality control indicates a module coordinating cellular stress responses with cytoskeletal and transport functions.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0031109","count":5},{"id":"GO:0032463","count":5},{"id":"GO:0032387","count":5},{"id":"GO:0050821","count":5}]},{"hash":"88601641467094297","title":"Unknown","description":"The top terms are highly heterogeneous: ubiquitin-dependent protein catabolic process and K33-linked ubiquitination suggest protein turnover, but many other terms relate to development, immune signaling, muscle, and kidney functions. There is no single coherent function tying all proteins together, so a concise, representative label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:1990390","count":7},{"id":"GO:0048294","count":7},{"id":"GO:0045497","count":7},{"id":"GO:0002467","count":7}]},{"hash":"762618251746756027","title":"Developmental signaling and organogenesis","description":"The top GO terms are dominated by development and organ formation (neurogenesis, nervous system development, kidney and heart development, vagina development) with key signaling pathways (smoothened/SHH, Roundabout/ROBO). Additional terms like apoptotic process and T cell receptor signaling suggest broader regulatory roles that intersect development with signaling networks. Overall, the proteins appear to cluster around developmental patterning and organogenesis via conserved signaling pathways.","confidence":"Medium","size":15,"edges":96,"triangles":354,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0022008","count":8},{"id":"GO:0060068","count":8},{"id":"GO:0007224","count":7},{"id":"GO:0035385","count":7}]},{"hash":"99245593375749699","title":"Adaptive immune activation and antiviral defense","description":"The top GO terms center on lymphoid functions and antiviral responses: B cell homeostasis, T follicular helper differentiation, T cell proliferation, and spleen development point to adaptive immune activation and organ involvement, while defense against virus and modulation of RIG-I/TNF signaling indicate antiviral defense. Vitamin D response also ties into immune regulation, supporting a cohesive theme of lymphoid immune function with antiviral aspects.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0001782","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0007014","count":2}]},{"hash":"998550931205413060","title":"Nuclear RNA processing and ribosome biogenesis","description":"The cluster is enriched for RNA splicing and spliceosome-related terms (RNA exon ligation, spliceosomal complex disassembly, mRNA splicing via spliceosome) and for rRNA maturation and ribosomal subunit biogenesis (5.8S, SSU/LSU rRNA maturation, ribosomal large subunit biogenesis), pointing to nuclear RNA processing and ribosome assembly as the central theme. A developmental term appears (embryonic cranial skeleton morphogenesis) but the dominant signal still centers on RNA processing and ribosome biogenesis, with a note on stress granule localization suggesting broader RNA handling. ","confidence":"High","size":15,"edges":86,"triangles":298,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:0048701","count":14},{"id":"GO:0000378","count":13},{"id":"GO:0000466","count":13},{"id":"GO:0042273","count":13}]},{"hash":"562073423264732927","title":"Central carbon metabolism and amino acid catabolism","description":"The cluster is dominated by GO terms for core energy pathways (TCA cycle, glycolysis, pyruvate decarboxylation to acetyl-CoA) and multiple amino acid catabolic routes (leucine, lysine) with supporting metabolism like glutathione and malonyl-CoA biosynthesis, pointing to a cohesive module centered on energy production from carbon sources and amino acid degradation.","confidence":"High","size":15,"edges":71,"triangles":187,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0006103","count":6},{"id":"GO:0006096","count":6},{"id":"GO:0006552","count":5},{"id":"GO:0033512","count":5}]},{"hash":"334770066367178745","title":"Neural and sensory organ development","description":"The cluster\u2019s top GO terms cluster around developmental programs shaping neural and sensory structures: brain regions (midbrain, rhombomere, brain segmentation), inner ear development and morphogenesis, visual perception, and pituitary gland development. The presence of multicellular organism development and regulation of transcription by RNA polymerase II suggests these proteins include transcriptional regulators driving these developmental processes. Together, they reflect a coherent theme of neuro-sensory organ formation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0032330","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":7}]},{"hash":"1141376711155647445","title":"Skeletal Muscle and Craniofacial Development","description":"The cluster is dominated by skeletal muscle cell differentiation and myoblast differentiation terms, with additional signals for craniofacial cartilage, palate development, and neural crest\u2013derived lineages (melanocyte differentiation), indicating a cohesive theme of early development of muscle and craniofacial structures.","confidence":"High","size":15,"edges":100,"triangles":400,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035914","count":11},{"id":"GO:0006351","count":8},{"id":"GO:0030318","count":8},{"id":"GO:2001016","count":8},{"id":"GO:0045663","count":8}]},{"hash":"715459572417738384","title":"Neural development and transcriptional regulation","description":"The top GO terms cluster around brain and nervous system development (brain, cerebellum, midbrain, inner ear) and locomotory behavior, with strong signals for transcriptional regulation and chromatin remodeling. This suggests proteins involved in neural development tightly coordinated with gene expression control, justifying a label focused on neural development and transcriptional regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0045317","count":4}]},{"hash":"1065585884754132037","title":"Bacterial sugar catabolism and quorum sensing","description":"These proteins show strong enrichment for diverse sugar catabolic pathways (xylose, arabinose, fucose, gluconate/glucuronate, glycerol) and related phosphorylation/biosynthetic steps, alongside quorum sensing signals, suggesting a bacterial metabolic cluster centered on carbohydrate utilization and intercellular communication. One term related to interleukin-13 may be a cross-species annotation artifact.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046835","count":7},{"id":"GO:0019640","count":6},{"id":"GO:0042732","count":6},{"id":"GO:0042355","count":6},{"id":"GO:0019521","count":6}]},{"hash":"1081756316022308629","title":"Mitochondrial Transport and Membrane Regulation","description":"The cluster shows strong signals for transport of metabolites across the mitochondrial membrane (ADP, phosphate, nucleotides, ornithine, CoA, deoxynucleotides) and for regulation of membrane permeability and membrane potential, plus apoptotic mitochondrial changes\u2014points to a mitochondrial transporter/regulator program. A single term related to pregnancy appears as an outlier.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008637","count":12},{"id":"GO:0035435","count":12},{"id":"GO:0007565","count":12},{"id":"GO:0046902","count":12},{"id":"GO:0000066","count":12}]},{"hash":"1736547425144676516","title":"Mitochondrial protein synthesis and respiratory chain assembly","description":"These terms collectively point to mitochondrial gene expression: import into the matrix, mitochondrial translation, rRNA maturation, ribosome biogenesis, and assembly of respiratory chain complexes, suggesting a cluster of mitochondrial protein synthesis and oxidative phosphorylation activities. The cardiac muscle tissue development term may reflect tissue context (mitochondria-rich heart) rather than a distinct shared function.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0032543","count":1},{"id":"GO:0030490","count":1},{"id":"GO:0042254","count":1}]},{"hash":"999196283290498320","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":15,"triangles":5,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000472","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000480","count":3}]},{"hash":"560193585540618840","title":"Immune activation and antigen presentation","description":"This cluster shows a clear enrichment for immune-related functions: antigen processing and presentation via MHC class II, positive regulation of B cell proliferation, and prostaglandin biosynthesis, all pointing to adaptive immune activation. Additional terms like cell proliferation and tyrosine phosphorylation support signaling and cell cycle aspects of immune responses. Some outliers such as locomotory behavior and synaptic vesicle endocytosis may reflect broader signaling roles or annotation noise, but the dominant theme centers on immune signaling and antigen presentation.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0008344","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0007006","count":2},{"id":"GO:0048662","count":2}]},{"hash":"1853768754562030408","title":"Multi-substrate membrane transporters","description":"The top GO terms point to diverse transmembrane transport activities, including xenobiotic, vitamin, sugar, and ion transport, as well as organic anions. This pattern suggests the cluster comprises membrane transporter proteins with broad substrate specificity across multiple families rather than a single substrate type.","confidence":"High","size":15,"edges":66,"triangles":134,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":15},{"id":"GO:0035461","count":15},{"id":"GO:0042908","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0042891","count":13}]},{"hash":"651944967052017602","title":"DNA replication and cell division machinery","description":"The cluster\u2019s top terms are dominated by DNA replication and cell division, including centromere-associated chromatin assembly (CENP-A) and microtubule severing, which together point to chromosome duplication and segregation processes. Additional terms related to transcription preinitiation complex assembly support a broader nuclear/cell-cycle role. A few vesicle trafficking terms appear peripherally, likely reflecting broader cellular maintenance roles or annotation noise rather than core function of the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0051013","count":3}]},{"hash":"2186861874398730068","title":"Notch-Linked Amino Acid and Lipid Metabolism","description":"This cluster includes a Notch signaling term (GO:0007219) alongside multiple amino acid catabolic/biosynthetic processes (L-kynurenine, L-alanine, glyoxylate, lysine, aspartate, kynurenic acid) and lipid-related pathways (sphingomyelin biosynthesis, fatty acid transport), suggesting a theme where Notch signaling interfaces with broad metabolic processes rather than a single, cohesive pathway.","confidence":"Medium","size":15,"edges":102,"triangles":417,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":6},{"id":"GO:0097053","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0009436","count":5},{"id":"GO:0033512","count":4}]},{"hash":"1705092620509375308","title":"Neuropeptide GPCR Signaling and Thermogenesis","description":"This cluster centers on GO terms for neuropeptide signaling, GPCR-mediated activation of adenylyl cyclase, and downstream signaling like ERK/MAPK, coupled with thermogenesis and temperature response. While terms like pain perception and coagulation appear, the strongest pattern is GPCR-cAMP signaling linked to metabolic/thermogenic regulation, suggesting a neuropeptide-driven signaling cluster that modulates energy expenditure.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0007218","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0002024","count":4}]},{"hash":"199713367057959538","title":"Unknown","description":"The top terms show a highly mixed set of functions\u2014from vertebrate development (thymus, heart, cerebral cortex) to bacterial processes (teichoic acid transport), plus cellular processes like endocytosis, ER stress-induced apoptosis, mitochondrial depolarization, and phosphorylation. With no cohesive biological theme and no edges connecting the proteins, there isn\u2019t a clear common function to name the cluster beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048538","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060444","count":3},{"id":"GO:0015777","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1035467746297246863","title":"Immune signaling and endosomal-lysosomal trafficking","description":"This cluster shows strong representation of adaptive and innate immune terms (adaptive immune response, innate immune response, B cell receptor signaling, IL-2 production), pointing to immune activation. The presence of endosomal transport and lysosome localization supports roles in antigen processing and intracellular trafficking related to immunity. Some terms like GTPase regulation and mitochondrial fission may reflect broader cellular regulation that complements immune signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1900042","count":3},{"id":"GO:0050853","count":3}]},{"hash":"1360813944422203463","title":"Neural signaling and memory","description":"The top GO terms converge on neuronal communication and plasticity, especially aminergic neurotransmitter loading into synaptic vesicles, calcium-mediated signaling, and anesthesia-resistant memory, pointing to synaptic transmission and memory-related functions as the cluster\u2019s core. Some terms (pigmentation, methanofuran biosynthesis, fibroblast migration) appear as outliers, but the dominant theme is neural signaling and memory. ","confidence":"Medium","size":15,"edges":80,"triangles":212,"max_degree":13,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071363","count":5},{"id":"GO:0015842","count":5},{"id":"GO:0042136","count":5},{"id":"GO:0048082","count":5},{"id":"GO:0048085","count":5}]},{"hash":"1861405577640837356","title":"Protein and RNA Methylation","description":"Top terms include multiple methylation-related processes: RNA guanine-N7 methylation; N-terminal peptide methylations on serine and alanine; and arginine methylation to asymmetrical dimethylarginine. These suggest a shared function in methyltransferase activity or methylation-based regulation. Other terms like positive regulation of GTPase activity, xenobiotic response, nodulation, and chlorophyll biosynthesis appear as less-connected annotations, possibly reflecting diverse roles or annotation noise in the cluster. Overall, the most coherent theme is methylation-related modifications, justifying the label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0036265","count":3},{"id":"GO:0035690","count":2},{"id":"GO:0002347","count":2},{"id":"GO:0042220","count":2}]},{"hash":"2000891578714778378","title":"Cell cycle control and chromatin modification with growth signaling","description":"Top terms cluster around mitotic cell cycle and histone acetylation (chromatin regulation), plus TORC1 signaling and proliferation-related processes. The presence of actin filament capping and GTPase regulation suggests coordination with cytoskeletal dynamics during cell division and growth signaling. Together, these terms point to a theme of cell cycle progression linked to chromatin modification and growth signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043966","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0043981","count":5},{"id":"GO:0043982","count":5}]},{"hash":"215413405717413227","title":"Cytoskeleton remodeling and immune defense","description":"The majority of top GO terms point to cytoskeletal dynamics and cell adhesion (cortical actin cytoskeleton organization, protein localization to microtubule, positive regulation of cell-matrix adhesion) as well as innate immune responses (cellular response to lipopolysaccharide, defense response to Gram-positive bacterium, apoptotic cell clearance). A few terms related to transcription and lipid/cholesterol metabolism appear as outliers, indicating a somewhat heterogeneous cluster with a dominant theme around cytoskeleton-immune interplay.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043277","count":3},{"id":"GO:0001954","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1126972357425749593","title":"Developmental patterning and interferon signaling","description":"This cluster centers on developmental patterning terms (left-right symmetry determination, pharyngeal system development, mesendoderm migration, substantia nigra development) and signaling pathways (Wnt, interferon-mediated signaling). While some terms touch on transcription and ubiquitination, the predominant theme is proteins involved in developmental patterning with associated signaling roles, including immune signaling cross-talk.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0007368","count":2},{"id":"GO:0090134","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0060037","count":2}]},{"hash":"597546075938906234","title":"Germline development and meiotic spindle assembly","description":"The top GO terms center on oogenesis and germline differentiation (cystoblast division, germarium-derived oocyte differentiation, ovarian fusome organization) and on meiotic spindle assembly/localization, suggesting a cohesive role in germline development and meiosis. Some terms point to broader developmental signaling, but the strongest signal ties to germline formation and spindle organization.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:0007282","count":2},{"id":"GO:0030706","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0051295","count":2}]},{"hash":"675567540073277394","title":"Neural development and transcriptional regulation","description":"This cluster appears linked to neural development and gene regulation. Terms like corticospinal tract morphogenesis and positive regulation of synapse assembly point to neural differentiation and connectivity, while DNA-templated transcription and NF-kappaB signaling reflect transcriptional control and signaling crosstalk. The microtubule localization term fits with neurite outgrowth, and innate immune response shows broader regulatory context. Taken together, the proteins likely participate in developmental and transcriptional processes in neural tissues.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035372","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0098907","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1518700803893910727","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by ubiquitination- and proteasome-related processes, including autoubiquitination, ubiquitin-dependent ERAD, K11- and K48-linked ubiquitination, and APC-dependent catabolic processes, pointing to targeted protein degradation. Some terms touch on cell division and signaling, but the prevailing theme is ubiquitin-mediated proteolysis and turnover.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0070979","count":4},{"id":"GO:0031145","count":4}]},{"hash":"1376959656765091128","title":"RNA processing and translation initiation","description":"This cluster is dominated by mRNA processing and export functions (spliceosome-mediated splicing, alternative splicing, mRNA export, and regulation of mRNA stability in stress) and also includes terms for assembling the translation initiation machinery (eIF4F complex) and IRES-driven viral translation, suggesting proteins that link RNA maturation with translation control. ","confidence":"High","size":14,"edges":86,"triangles":310,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0045292","count":7},{"id":"GO:0048025","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0097010","count":6}]},{"hash":"451719157607699864","title":"Ribosome Biogenesis & Translation","description":"Strong enrichment for translation and ribosome biogenesis terms (GO:0006412, GO:0000027, GO:1902626, GO:0090070) indicates the proteins cluster around ribosome assembly and protein synthesis. Additional GO terms related to mitochondrial function and development are present but far less represented, suggesting ancillary roles. Overall, Ribosome Biogenesis & Translation best captures the core function of this cluster.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0000027","count":2},{"id":"GO:1902626","count":1},{"id":"GO:0090070","count":1},{"id":"GO:0061458","count":1}]},{"hash":"195863942569778909","title":"Renal development and hormone signaling","description":"The cluster contains strong signals for kidney-related processes: renal system development, inner medullary collecting duct development, and regulation of urine volume, pointing to renal development and physiology. Additional entries for prostaglandin biosynthesis and responses to thyroid hormone and retinol metabolism suggest coordinated endocrine and metabolic regulation affecting kidney function. Some terms (e.g., jasmonic acid stimulus) are divergent, but the dominant pattern centers on renal development and hormonal control.","confidence":"High","size":14,"edges":74,"triangles":210,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071395","count":9},{"id":"GO:0001516","count":9},{"id":"GO:0072001","count":9},{"id":"GO:0097066","count":9},{"id":"GO:0071276","count":9}]},{"hash":"1668740613753510004","title":"Actin Cytoskeleton Remodeling and Rho Signaling","description":"Top GO terms center on actin cytoskeleton organization and dendritic spine morphogenesis, with regulation of Rho signaling supporting cytoskeletal remodeling. Additional terms point to centrosome-associated protein localization and tight junction assembly, consistent with cell polarity and structural organization. A few items (methylation/capping) and immune-related terms are less directly connected, but may reflect broader regulatory roles linked to gene expression and signaling in the same protein network. Overall, the cluster appears to be driven by cytoskeleton dynamics and polarity control.","confidence":"Medium","size":14,"edges":37,"triangles":38,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1904781","count":2},{"id":"GO:0007605","count":2}]},{"hash":"908273509826880849","title":"Embryogenesis: Redox Response and Hormone Signaling","description":"The cluster includes developmental processes such as forebrain regionalization, anterior head development, nephric duct elongation, and nephron tubule epithelial differentiation, alongside hormone signaling pathways (growth hormone receptor signaling, thyroid hormone stimulus) and redox-related responses (cellular response to hydrogen peroxide, oxidation-reduction). This pattern suggests a cohesive theme of embryonic development regulated by redox state and endocrine signals, with cell adhesion and exocytosis supporting morphogenesis.","confidence":"Medium","size":14,"edges":29,"triangles":22,"max_degree":7,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0070301","count":6},{"id":"GO:0055114","count":5},{"id":"GO:2000744","count":5},{"id":"GO:0035849","count":5},{"id":"GO:0097067","count":5}]},{"hash":"1785018755459569200","title":"KIT-driven development and neural differentiation","description":"This cluster centers on KIT signaling as a shared axis, with related terms covering melanocyte differentiation and mast cell cytokine production, plus neural and broad developmental processes (neuron projection development, nerve impulse transmission, heart and salivary gland development). Rho signaling regulation further supports a theme of cytoskeletal rearrangements during differentiation and projection. The MHC class I antigen presentation term is less directly tied, but does not overpower the KIT-dominant developmental signal. Overall, a KIT-centered developmental and neural differentiation theme fits best.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0032762","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0030318","count":2}]},{"hash":"1460635582170121407","title":"Axonogenesis and bone development regulators","description":"This cluster centers on neural development (axon extension/axonogenesis) and skeletal development (bone development and trabecula-related processes), with several terms pointing to regulation of signaling pathways (protein kinase activity, adenylate cyclase) and gene localization to chromatin. While immune signaling (TLR1) and angiogenesis regulation are present, the strongest theme is developmental regulation linking neural and skeletal tissue formation through signaling and transcriptional control.","confidence":"Medium","size":14,"edges":13,"triangles":1,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":7},{"id":"GO:0071169","count":7},{"id":"GO:0048846","count":6},{"id":"GO:0007409","count":6},{"id":"GO:0060348","count":6}]},{"hash":"371137556945604490","title":"Innate immune signaling and actin remodeling","description":"The top GO terms cluster around innate immune responses (cellular response to lipopolysaccharide, inflammatory response, positive regulation of TNF production, NOD2 signaling) and cytoskeletal dynamics (actin filament severing), suggesting a theme of immune activation accompanied by actin remodeling. A few terms related to germ cell processes appear but are sparse and do not define the cluster; the core signals point to inflammation and cytoskeletal changes during immune responses.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0070431","count":2}]},{"hash":"1331805334591781727","title":"Neurodevelopment and organogenesis signaling","description":"Top terms indicate a mix of neural/organ development processes (axonogenesis, nerve transmission, astrocyte differentiation, heart development, nephric duct morphogenesis, salivary gland boundary specification) and immune signaling (Th2 cytokine production, IL-27 signaling, STAT phosphorylation). This points to signaling pathways that coordinate development and neural function, with immune signaling components as part of broader regulatory networks.","confidence":"Medium","size":14,"edges":85,"triangles":307,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035745","count":12},{"id":"GO:0070106","count":12},{"id":"GO:0042517","count":12},{"id":"GO:0007507","count":11},{"id":"GO:0071372","count":11}]},{"hash":"894831179833856695","title":"Cardiac Muscle Development and Epigenetic Regulation","description":"The cluster centers on heart-related development and muscle cell fate (heart development, muscle fate specification, cardiac hypertrophy), suggesting a role in cardiac muscle formation and remodeling. The presence of transcriptional regulation and histone modification terms (RNA Pol II\u2013mediated transcription, histone methylation/acetylation, nucleosome assembly) points to epigenetic control of gene expression during development and stress responses, tying together development and chromatin remodeling in cardiac contexts.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042694","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0014898","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0060669","count":2}]},{"hash":"793256399383550006","title":"Neural and Pancreatic Development","description":"This cluster centers on developmental processes in the nervous system (midbrain, spinal cord, brain segmentation, neural crest migration, axon guidance) and endocrine pancreatic development, with transcriptional regulation terms. The shared theme appears to be broad neuroendocrine development rather than a single pathway, justifying a label that encompasses both neural and pancreatic organogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031018","count":10},{"id":"GO:0003309","count":9},{"id":"GO:0030901","count":9},{"id":"GO:0021516","count":9},{"id":"GO:0006357","count":9}]},{"hash":"794843234492637618","title":"Neural and Craniofacial Development","description":"This cluster centers on broad developmental processes across neural tissues (habenula, hypothalamus, retina) and craniofacial structures (roof of mouth/palate, odontogenesis, skeletal muscle development), with prominent terms tied to transcription by RNA polymerase II and its regulation. This implies a set of proteins involved in developmental regulation through transcriptional control across multiple tissues involved in brain and facial formation.","confidence":"High","size":14,"edges":86,"triangles":307,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060021","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0090190","count":6}]},{"hash":"604969091032686134","title":"Vertebrate embryonic organ development","description":"This cluster is dominated by GO terms for embryonic development and organogenesis across multiple tissues (pituitary, eye, heart, brain/cerebral cortex) and in utero development, with some regulatory terms related to transcription by RNA Pol II. The common theme is vertebrate embryogenesis and organ formation.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0060441","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0006366","count":5},{"id":"GO:0000122","count":5}]},{"hash":"2209355650021148901","title":"Developmental signaling and transcription","description":"The top GO terms point to broad developmental roles across tissues (placenta, heart, vagina, growth plate cartilage) and include regulators of gene expression (DNA-templated transcription) and signaling (p38 MAPK cascade). Although a few terms touch on immune responses, the dominant pattern is development and its regulatory signaling. This suggests a cluster of proteins involved in developmental processes and their transcriptional/signaling control.","confidence":"Medium","size":14,"edges":15,"triangles":2,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001893","count":6},{"id":"GO:2001275","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0043433","count":5}]},{"hash":"2291027821719530611","title":"Reproductive development and lipid signaling","description":"The top terms cluster around development of female reproductive tissues (female gonad development, uterus development, digestive tract development) and biosynthesis of lipid mediators (9-cis-retinoic acid, prostaglandins). This points to a theme of developmental regulation mediated by lipid signaling, with additional but less central hints at broader metabolism (methylation, xenobiotic processing). So the label emphasizes developmental signaling tied to lipid biosynthesis.","confidence":"Medium","size":14,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":9},{"id":"GO:0008585","count":9},{"id":"GO:0048565","count":8},{"id":"GO:0046232","count":8},{"id":"GO:0001516","count":8}]},{"hash":"488322959627974719","title":"Vertebrate head and kidney organogenesis with endocrine signaling","description":"Among the top GO terms, there is clear emphasis on head patterning (forebrain regionalization, anterior head development, pituitary gland development) and kidney development (nephric duct elongation, nephron tubule epithelial differentiation), along with endocrine pathways (growth hormone receptor signaling, cellular response to thyroid hormone stimulus). Exocytosis and cell-matrix adhesion relate to morphogenesis and tissue remodeling. While one term is obsolete, the overall theme points to a cluster of proteins involved in vertebrate organogenesis with endocrine regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034720","count":3},{"id":"GO:0021983","count":2},{"id":"GO:2000744","count":2},{"id":"GO:0035849","count":2},{"id":"GO:0097067","count":2}]},{"hash":"1223663021506975987","title":"Rho GTPase\u2013driven actin remodeling and cell adhesion","description":"The cluster is dominated by GO terms related to small GTPase signaling, regulation and assembly of actin-rich structures (filopodia, podosomes), and adhesion/spreading, as well as establishment of epithelial polarity. These features point to cytoskeletal dynamics and cell-adhesion remodeling governed by Rho-family GTPases. Mitochondrial fission and synaptic transmission terms may reflect broader cellular organization or neuron-related contexts, but the core theme is actin remodeling and adhesion/polarity control. This makes the label a precise fit for the cluster\u2019s functional core.","confidence":"High","size":14,"edges":16,"triangles":2,"max_degree":7,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":8},{"id":"GO:0007264","count":8},{"id":"GO:0046847","count":8},{"id":"GO:0000266","count":7},{"id":"GO:0090162","count":7}]},{"hash":"134823409025841383","title":"Actin\u2013myosin Cytoskeleton in Muscle Development and Cytokinesis","description":"The cluster is dominated by GO terms for actin filament assembly and organization, skeletal muscle development, and contractile ring processes (both in mitosis and cytokinesis), pointing to proteins involved in cytoskeletal remodeling during muscle formation and cell division.","confidence":"High","size":14,"edges":51,"triangles":95,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":4},{"id":"GO:0030240","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0043983","count":4},{"id":"GO:0000916","count":4}]},{"hash":"545133350433385503","title":"Neural development and Wnt signaling","description":"This cluster is dominated by GO terms related to neural development and signaling, including hippocampus development, neuron axon extension, neuron apoptotic regulation, and cellular response to dopamine, along with positive regulation of canonical Wnt signaling. These converge on a theme of neural development and Wnt-mediated signaling. Some terms reference other tissues (kidney development) or immune signaling (T cell receptor) and cell cycle, suggesting broader, cross-tissue developmental signaling rather than a strictly neural program.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":7},{"id":"GO:0021766","count":6},{"id":"GO:0001822","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0045773","count":5}]},{"hash":"623824822291053286","title":"Hedgehog and Wnt developmental signaling","description":"This cluster centers on Hedgehog (Smoothened) signaling regulation and Wnt calcium\u2013modulating signaling, with additional ties to broad developmental processes such as multicellular development, morphogenesis, and differentiation. Neural-associated terms like astrocyte activation and short-term memory are present but less central, so the dominant pattern is developmental signaling driven by Hedgehog and Wnt pathways. ","confidence":"Medium","size":14,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0045880","count":5},{"id":"GO:0048143","count":4},{"id":"GO:0007223","count":4},{"id":"GO:0045879","count":4},{"id":"GO:0030316","count":4}]},{"hash":"1739125964412294760","title":"Developmental signaling and morphogenesis","description":"These proteins are linked to development and morphogenesis, featuring heart and bone development, TGF-beta signaling, GTPase-regulated signaling, cell polarity, and cytoskeletal remodeling (podosome assembly). While one term (ascospore-type prospore membrane formation) is fungal-specific, the overall theme points to developmental signaling and morphogenesis in multicellular contexts.","confidence":"Medium","size":14,"edges":14,"triangles":0,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007275","count":3}]},{"hash":"305780670177684403","title":"Cadherin-Mediated Neural Development","description":"These proteins are heavily linked to neural development and cell adhesion, dominated by cadherin-mediated cell\u2013cell adhesion, neuronal stem cell maintenance, and synapse assembly. The combination of nervous system development with cadherin-based adhesion suggests roles in neural tissue formation and synaptic connectivity, with other terms like blood vessel maturation and ossification likely reflecting broader developmental signaling interconnections. ","confidence":"High","size":14,"edges":49,"triangles":75,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0097150","count":9},{"id":"GO:0044331","count":9},{"id":"GO:0007399","count":9}]},{"hash":"557993049995815890","title":"Liver metabolism, coagulation, and regeneration","description":"Top GO terms indicate liver-centric physiology: coagulation and extracellular matrix secretion (liver-produced clotting factors and ECM remodeling), lipid metabolism and glucose responsiveness, and hepatocyte proliferation/liver regeneration; three deglutamylation terms suggest a post-translational regulatory layer that could influence these processes.","confidence":"High","size":14,"edges":39,"triangles":36,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009395","count":3},{"id":"GO:0030070","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0035609","count":3},{"id":"GO:0035610","count":3}]},{"hash":"308504641037709922","title":"Rho GTPase\u2013Mediated Development","description":"This cluster centers on Rho signal transduction and regulation of GTPase activity, with supportive links to vesicle fusion and calcium-dependent exocytosis, and broad developmental processes (brain, nervous system, heart, skeletal). The convergence of cytoskeletal signaling and vesicle trafficking plus diverse developmental terms suggests proteins coordinating signaling pathways that drive tissue development via vesicle dynamics. The presence of pseudohyphal growth hints at conserved, cross-species signaling and polarity mechanisms. Overall, a developmentally oriented, Rho-GTPase\u2013driven vesicle trafficking role is most consistent.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":14},{"id":"GO:0001501","count":14},{"id":"GO:0009789","count":14},{"id":"GO:0045956","count":14},{"id":"GO:0007420","count":14}]},{"hash":"257465376249422216","title":"Thermogenesis and cardiovascular signaling","description":"This cluster centers on terms related to heat generation and thermogenesis (diet-induced) along with cardiovascular regulation, such as heart development, blood pressure regulation, and endothelial barrier dynamics, suggesting a shared role in autonomic or metabolic control of vascular and thermal physiology. A few outliers (immune differentiation, ovarian follicle growth) are present but do not dominate the theme, so the core signal ties to thermogenic and vascular signaling pathways, including opioid receptor\u2013related modulation.","confidence":"Medium","size":14,"edges":88,"triangles":329,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":12},{"id":"GO:0007507","count":11},{"id":"GO:0031649","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0051930","count":11}]},{"hash":"95657285212731343","title":"Cardiac signaling and energy metabolism","description":"The top GO terms cluster around cardiovascular regulation (positive regulation of blood pressure, heart development), GPCR-cAMP signaling (adenylate cyclase\u2013activating pathways), and energy metabolism (electron transport chain, regulation of membrane potential, heat generation). While a few terms touch on immune and reproductive processes, the dominant themes point to heart-related signaling and mitochondrial energy production.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0007190","count":8},{"id":"GO:0042391","count":7}]},{"hash":"589050443988995094","title":"Glycosphingolipid and N-glycan biosynthesis","description":"This cluster is dominated by glycosylation and sialylation processes, with terms like ganglioside biosynthesis, glycosylceramide metabolism, protein sialylation, N-linked glycosylation via asparagine, and oligosaccharide metabolism. Although a few terms pertain to olfactory development, the core shared function among these proteins appears to be glycan biosynthesis and modification on both glycoproteins and glycolipids.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001574","count":2},{"id":"GO:0021628","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0006491","count":2},{"id":"GO:0006677","count":2}]},{"hash":"465205311174699610","title":"Multi-substrate membrane transporters","description":"The GO terms indicate transmembrane transport of diverse substrates (xenobiotics, vitamins, sugars, nitrite, phosphate, etc.), suggesting a family of broad-range transport proteins.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":7},{"id":"GO:0035461","count":7},{"id":"GO:0042891","count":6},{"id":"GO:0015751","count":4},{"id":"GO:0043252","count":4}]},{"hash":"204860938497835713","title":"Tissue development and remodeling","description":"The top GO terms cluster around wound healing, response to mechanical stimulus, EMT in endocardial cushion formation, smooth muscle development, and fibroblast proliferation, with additional signals for pancreatic and neural development. This pattern points to broad tissue morphogenesis, repair, and remodeling rather than a single pathway, making a label centered on developmental remodeling appropriate.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042060","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0007050","count":3},{"id":"GO:0048745","count":3},{"id":"GO:0055114","count":3}]},{"hash":"2071852415121303145","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0006146","count":3},{"id":"GO:0044205","count":3},{"id":"GO:0006209","count":2},{"id":"GO:0048678","count":2}]},{"hash":"286476429907458844","title":"Innate immune signaling and cytoskeletal remodeling","description":"This cluster centers on innate immune pathways, including regulation of NF-kappaB activity and NOD1/NOD2 signaling, with protein ubiquitination as a key regulatory mechanism. Also represented are responses tied to the cytoskeleton and cell movement (cellular response to mechanical stimulus, lamellipodium morphogenesis), which often accompany signaling-driven remodeling processes. A few terms touch development (notochord differentiation, skeletal morphogenesis) but the dominant theme appears to be immune signaling intertwined with cytoskeletal dynamics and protein regulation. Given the lack of network edges, this label captures the most coherent functional theme across the listed GO terms.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0070427","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0070431","count":3}]},{"hash":"1939356587086696565","title":"Hair follicle morphogenesis and keratinocyte differentiation","description":"Based on the top GO terms, the cluster is enriched for skin/epidermal biology, with multiple terms pointing to hair follicle development, keratinization, and keratinocyte differentiation. While other terms in the set pertain to nervous system, immune, and autophagy processes, these do not dominate the cluster\u2019s theme, and the strongest signal centers on epidermal differentiation. The lack of network edges suggests the proteins may be functionally diverse beyond this theme, but the skin/epidermal connection remains the most representative label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":3},{"id":"GO:0055015","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0014012","count":2},{"id":"GO:0031424","count":2}]},{"hash":"536728632175292217","title":"Vertebrate embryonic development and organogenesis","description":"The top GO terms cluster around differentiation and morphogenesis across neural, vascular, cardiac, pancreatic, and other embryonic tissues, indicating a broad developmental program rather than a single pathway. This suggests the proteins participate in vertebrate embryo formation and organogenesis, reinforced by terms like heart tube formation, floor plate development, and various tissue-specific differentiations. ","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030318","count":13},{"id":"GO:0014003","count":13},{"id":"GO:0060842","count":13},{"id":"GO:0003236","count":13},{"id":"GO:0003326","count":13}]},{"hash":"321624170128826500","title":"mRNA splicing and translation initiation machinery","description":"The top GO terms point to spliceosome-mediated mRNA splicing, alternative splicing control, and steps in forming the translation preinitiation complex, plus initiation factor assembly and translation reinitiation, indicating a cluster of proteins involved in both mRNA processing and initiating translation.","confidence":"High","size":13,"edges":10,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0001825","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0006378","count":5}]},{"hash":"30406044985159645","title":"Ubiquitin-Dependent Proteolysis in Mitosis and DNA Repair","description":"This cluster is enriched for ubiquitin-dependent degradation pathways (ERAD, SCF, N-end rule, K11-linked ubiquitination) and protein catabolic processes, plus cell-cycle events (G2/M transition, chromosome segregation, exit from mitosis) and DNA repair (nucleotide-excision repair). The combination suggests a group of proteins coordinating targeted proteolysis to drive mitosis and genome maintenance.","confidence":"High","size":13,"edges":56,"triangles":165,"max_degree":10,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":10},{"id":"GO:0030433","count":10},{"id":"GO:0051865","count":10},{"id":"GO:0010458","count":9},{"id":"GO:0007059","count":9}]},{"hash":"882969037324688909","title":"RNA processing and ribosome biogenesis","description":"The cluster is dominated by GO terms tied to spliceosome-mediated mRNA splicing, rRNA maturation, and ribosomal subunit biogenesis, with additional signals for translation initiation and regulatory ncRNA silencing, suggesting a core role in RNA maturation/processing and ribosome assembly.","confidence":"High","size":13,"edges":28,"triangles":15,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0001731","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0006378","count":5}]},{"hash":"2143350903888537844","title":"Proteostasis and mitochondrial quality control","description":"The cluster is enriched for protein deubiquitination, ubiquitin-dependent ERAD, and regulation of proteasomal degradation, alongside mitophagy and control of mitochondrial fusion, pointing to a cohesive theme of protein homeostasis and mitochondrial quality control. Translation-related terms (ribosomal subunit assembly, translation) fit within this proteostasis framework, with additional signals for cellular stress responses such as endocytosis regulation and TNF signaling, suggesting a broader but still proteostasis-centric cluster.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0006412","count":6},{"id":"GO:1901799","count":6},{"id":"GO:0000423","count":6}]},{"hash":"2075190090555267347","title":"Developmental growth and TORC1 signaling","description":"The cluster includes terms tied to organismal development (spinal cord and male gonad development; multicellular growth) and growth regulation via TORC1 signaling, plus cytoskeletal and gene expression processes (microtubule severing, mRNA splicing) and vesicle transport, suggesting a coordinated set of developmental and growth-control functions with signaling and trafficking components.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:0038202","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0000398","count":5}]},{"hash":"487118084238326861","title":"Central metabolism and lipid/vitamin biosynthesis","description":"The terms point to core energy metabolism (glycolysis and TCA) along with lipid metabolism (fatty acid beta-oxidation and biosynthesis, including malonyl-CoA) and vitamin biosynthesis (phylloquinone, menaquinone), plus supporting catabolic and antibiotic biosynthesis activities. This suggests a cohesive theme of central carbon metabolism plus lipid and cofactor biosynthesis, rather than a single specialized pathway.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0006099","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0006635","count":3}]},{"hash":"2014416070702012988","title":"Embryonic organ development and morphogenesis","description":"These proteins cluster around developmental and morphogenetic processes across multiple tissues (eye, inner ear, cerebellum, digestive tract, skeletal muscle, lung), supported by transcriptional regulation terms, suggesting a shared role in embryonic organogenesis and tissue patterning.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0008045","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0021549","count":6}]},{"hash":"1060807255825344455","title":"Epigenetic Regulation of Developmental Differentiation","description":"This cluster centers on chromatin remodeling and transcriptional control (negative regulation of transcription by RNA polymerase II; chromatin remodeling; DNA-templated transcription) and includes diverse tissue differentiation terms (osteoblast differentiation, astrocyte fate commitment, lung smooth muscle development, bronchus cartilage development, cardiac muscle differentiation). The combined signals point to proteins coordinating lineage specification through epigenetic mechanisms rather than a single tissue process.","confidence":"High","size":13,"edges":44,"triangles":62,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0043044","count":8},{"id":"GO:0001649","count":6},{"id":"GO:0006351","count":6},{"id":"GO:1902042","count":5}]},{"hash":"576942868323533106","title":"Embryonic Morphogenesis and Organ Development","description":"The proteins are enriched for embryonic development and organ morphogenesis across multiple tissues (eye, heart/outflow tract, hindlimb, mouth), plus neural development elements (motor neuron axon guidance, hypothalamus differentiation) and gastrulation-related processes (primitive streak formation). The presence of RNA polymerase II transcription indicates transcriptional regulation during these developmental programs, together suggesting a cluster of factors coordinating early development and tissue morphogenesis.","confidence":"Medium","size":13,"edges":11,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0003148","count":6},{"id":"GO:0008584","count":6}]},{"hash":"1237275098723374487","title":"Embryonic organogenesis and morphogenesis","description":"This cluster is driven by GO terms spanning multiple organ and tissue development stages\u2014heart/outflow tract, hindlimb, eye, placenta, prostate\u2014along with embryonic development and transcriptional regulation (DNA-templated transcription). Collectively, they point to a set of proteins involved in embryonic organogenesis and morphogenesis rather than a single pathway. ","confidence":"High","size":13,"edges":40,"triangles":26,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0021986","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0003148","count":6},{"id":"GO:0008584","count":6}]},{"hash":"1297785447406245898","title":"Neural Development and Lipid Signaling","description":"The proteins show prominent neural-related functions: synapse assembly, neurotransmitter secretion, and axon extension/guidance, suggesting a neural development and synaptic signaling theme. Lipid metabolism and signaling are also evident through phosphatidylserine and triglyceride catabolism and prostaglandin biosynthesis, indicating lipid-mediated signaling contexts that often intersect neural and inflammatory pathways. A minor immune-regulatory term is present but does not dominate the cluster theme. ","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006660","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0007269","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":3}]},{"hash":"939794317095651371","title":"RNA Methylation and Processing","description":"The cluster shows strong representation of RNA modification activities (tRNA methylation, tRNA wobble uridine modification, RNA guanine-N7 methylation, 7-methylguanosine mRNA capping) and RNA processing (rRNA processing), with accompanying protein methylation, suggesting RNA-modifying enzymes and RNA maturation factors as the core theme, despite some outlier biosynthetic terms.","confidence":"High","size":13,"edges":48,"triangles":76,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0009236","count":6},{"id":"GO:0006364","count":6},{"id":"GO:0006479","count":6},{"id":"GO:0030488","count":6},{"id":"GO:0017000","count":5}]},{"hash":"2260882245379871959","title":"Transcriptional Regulation and Circadian Expression","description":"This cluster is dominated by GO terms for transcription by RNA polymerase II and DNA-templated transcription, with a clear signal for circadian regulation of gene expression. While other terms point to various developmental and immunological processes, the core theme centers on transcriptional control and rhythmic gene expression, suggesting these proteins primarily function as transcription regulators with circadian modulation.","confidence":"Medium","size":13,"edges":75,"triangles":255,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0045669","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0043433","count":5},{"id":"GO:0032922","count":5}]},{"hash":"1770786840311127348","title":"Prostate development and mitotic cell cycle control","description":"The top GO terms cluster around prostate gland development, male sex differentiation, and mitotic cell cycle, with steroid hormone receptor complex assembly also implicated, pointing to a theme of androgen-related reproductive development coupled with cell division. Immune-related terms like innate immune response and dsRNA response appear, but are less central to the main signal of this cluster. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0006463","count":4},{"id":"GO:0046661","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0030850","count":4}]},{"hash":"172301243369846125","title":"Cell signaling and gene expression regulation","description":"Most terms point to broad regulatory roles rather than a single pathway: positive regulation of phosphorylation and kinase activity, NF-kappaB signaling, protein ubiquitination, GTPase activity, mRNA transport, and responses to hypoxia, along with muscle development and cell cycle regulation. The cluster seems to group proteins that modulate signaling cascades and gene expression at multiple levels, rather than a specific functional module. Therefore, a concise label is appropriate.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048741","count":6},{"id":"GO:1902527","count":5},{"id":"GO:0010800","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0043123","count":5}]},{"hash":"2222631128759184088","title":"Calcium-Dependent Signaling and Developmental Processes","description":"The cluster centers on calcium-activated signaling (calcineurin-NFAT cascade, positive regulation of calcineurin-NFAT) and neuronal signaling (excitatory postsynaptic potential), with additional terms spanning development (mesoderm development, meiotic cell cycle) and broad signaling/trafficking processes (brassinosteroid signaling, ER-to-Golgi transport). This mix suggests a shared theme around signaling networks that influence development and cell-cycle\u2013related functions, with calcium signaling as a common thread, rather than a single focused pathway.","confidence":"Medium","size":13,"edges":6,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007498","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0009742","count":3},{"id":"GO:0033173","count":3}]},{"hash":"610811703362644493","title":"Endothelial ECM Remodeling and EMT","description":"This cluster centers on extracellular matrix organization (fibronectin and collagen fibril assembly) and endothelial cell migration, with explicit signals for epithelial-to-mesenchymal transition and tricellular tight junction assembly, indicating coordinated ECM remodeling and endothelial state changes. Immune-related terms (complement activation) and lipoprotein clearance are present but less defining.","confidence":"Medium","size":13,"edges":21,"triangles":9,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0034381","count":7},{"id":"GO:0070207","count":7},{"id":"GO:0043542","count":7},{"id":"GO:1905590","count":7}]},{"hash":"1599622948399230439","title":"Cytokinesis and Septin Assembly","description":"The top GO terms cluster around cell division processes (mitotic and meiotic), division septum/septin ring assembly, and regulation of exocytosis, all of which point to cytoskeletal organization and cytokinesis. Additional terms touch on differentiation-related processes and ciliogenesis/polarity, which can be downstream or related to cytoskeletal dynamics during cell differentiation. Taken together, this cluster appears best described by cytokinesis and septin-mediated cytoskeletal organization within differentiation contexts. ","confidence":"Medium","size":13,"edges":54,"triangles":94,"max_degree":12,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0030154","count":8},{"id":"GO:0000917","count":7},{"id":"GO:0007283","count":7},{"id":"GO:0017157","count":7},{"id":"GO:0051311","count":7}]},{"hash":"2203924577701652428","title":"Ribosome Biogenesis and RNA Processing","description":"Driven by GO terms centered on ribosome biogenesis, rRNA maturation, and preribosome assembly (e.g., maturation of LSU-rRNA, preribosome assembly, rRNA methylation, cytosolic ribosome assembly) with additional signs of mitochondrial translation regulation. A few apoptotic pathway terms appear, possibly reflecting stress signaling rather than core function; overall the cluster seems to revolve around ribosome production and RNA processing.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008635","count":1},{"id":"GO:0051402","count":1},{"id":"GO:0008631","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0070131","count":1}]},{"hash":"2167520317016824223","title":"Diverse transmembrane transporters","description":"This cluster is driven by multiple GO terms for transmembrane transport of diverse substrates (xenobiotics, vitamins, arabinose, galactose, sialic acid, phosphate) and a term for neurotransmitter loading into synaptic vesicles, pointing to a group of membrane transporter proteins with broad substrate specificity. A single term about fucose metabolic process is incidental; the dominant pattern is transporter activity across membranes. Therefore, the cluster is best described as Diverse transmembrane transporters.","confidence":"High","size":13,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0015751","count":4},{"id":"GO:0015757","count":4}]},{"hash":"134277078253927724","title":"mRNA splicing and translation initiation","description":"This cluster is defined by GO terms strongly tied to spliceosome-mediated mRNA processing (splicing, alternative splicing, regulation of splicing) and translation initiation (reinitiation, preinitiation complex formation, eIF4F assembly, IRES-dependent initiation), with an additional note on mRNA export. This mix suggests a functional module linking RNA processing with the initiation of translation. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0097010","count":4},{"id":"GO:0075525","count":4}]},{"hash":"728813829495241670","title":"RNA Splicing and Translation Initiation Regulation","description":"This cluster centers on RNA processing and translation control: multiple terms describe splicing regulation via the spliceosome (positive/negative regulation, alternative splicing, preinitiation complex formation) and translation initiation/reinitiation (eIF4F assembly, translation reinitiation, viral termination-reinitiation), with regulatory ncRNA-mediated gene silencing supporting an RNA-regulatory theme.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0006378","count":9}]},{"hash":"817542697679488681","title":"TGF-beta\u2013driven muscle development and regeneration","description":"Proteins in this cluster are enriched for transcriptional regulation and development, with strong signals for cellular response to TGF-beta and positive regulation of satellite cell activation in skeletal muscle regeneration. The presence of skin development and endothelial chemotaxis terms suggests additional tissue remodeling components, indicating a coordinated program of muscle development/regeneration intertwined with broader tissue remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043388","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0006469","count":4}]},{"hash":"2292028456185400012","title":"Diverse Ion and Sugar Membrane Transporters","description":"The GO terms cluster around transmembrane transport for a variety of substrates, including K+ and Na+ ions, nitrite, phosphate, and several sugars (arabinose, fructose, D-xylose), plus xenobiotic transport, indicating a cohesive set of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015751","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0035435","count":2}]},{"hash":"2001237092507486462","title":"Developmental transcription and cell cycle regulators","description":"This cluster is dominated by GO terms pointing to DNA-templated transcription and developmental processes (embryonic development, Leydig cell differentiation, mammary gland development) alongside cell cycle and cyclin-dependent kinase activity. The overlap suggests proteins functioning as transcriptional regulators during development while also coordinating cell division, giving a cohesive developmental-regulation and cell-cycle theme. Some outlier terms exist, but the core signal is clear.","confidence":"High","size":13,"edges":58,"triangles":141,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0001701","count":5},{"id":"GO:0033327","count":5},{"id":"GO:0060749","count":5},{"id":"GO:2001275","count":4}]},{"hash":"1649545080689334330","title":"Antiviral Interferon Response","description":"The cluster is dominated by GO terms related to antiviral defense and interferon signaling (cellular response to type I interferon; defense response to virus; related regulatory terms), suggesting a core theme of antiviral immunity. A few terms (photoreceptor localization, prostate gland development, steroid hormone receptor complex assembly, cadmium response) appear less connected, which points to some heterogeneity or pleiotropy in annotations. Overall, the core function appears antiviral/interferon-mediated defense, but the presence of outliers lowers the certainty somewhat.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0070979","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006463","count":3},{"id":"GO:0046661","count":3},{"id":"GO:0036494","count":3}]},{"hash":"569740148385242567","title":"Cardiovascular and metabolic regulation","description":"Based on the top GO terms, the cluster centers on cardiovascular function (heart development, blood pressure regulation, renin secretion, endothelial barrier modulation) and energy metabolism (diet-induced thermogenesis). While there are immune and pain signaling terms present, they likely reflect modulatory links rather than a separate core function, so the label emphasizes cardiovascular and metabolic regulation.","confidence":"High","size":13,"edges":58,"triangles":118,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0031649","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0051930","count":12},{"id":"GO:0002305","count":12}]},{"hash":"1617815540884352678","title":"Neural Sensory Perception and Behavioral Signaling","description":"This cluster is dominated by GO terms related to sensory perception (pain, vision) and behavioral responses (cocaine), with a strong signal of signaling pathway regulation (ERK cascade) and responses to signaling molecules (prostaglandin, temperature). While some terms touch systemic processes (heart development, thermogenesis, peristalsis), the core theme appears to be neural/sensory signaling and behavior.","confidence":"Medium","size":13,"edges":43,"triangles":53,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0002024","count":4}]},{"hash":"2300226247959118669","title":"GPCR-cAMP Signaling and Metabolic Stress Response","description":"The GO terms show a strong thread of G-protein coupled receptor signaling leading to adenylate cyclase activation, coupled with metabolic processes like diet-induced thermogenesis and electron transport chain activity. Additional terms hint at cardiovascular regulation (blood pressure) and broad stress responses (pain, morphine, xenobiotics) and anti-inflammatory regulation, which together point to a signaling module that links GPCR/cAMP signaling with metabolic and stress-response pathways.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10},{"id":"GO:0007190","count":10},{"id":"GO:0002024","count":9}]},{"hash":"1187115725581438456","title":"RNA processing and one-carbon metabolism","description":"The top GO terms cluster around RNA processing and modification (tRNA processing, RNA modification) and one-carbon metabolic pathways (tetrahydrofolate metabolism, glycine decarboxylation, methylation, sarcosine catabolism), suggesting a cohesive theme of RNA metabolism linked to folate- and glycine-derived methylation processes. Some terms like T cell receptor signaling and glutamatergic synaptic transmission appear, which may reflect annotation noise or broader, multi-functional proteins; however, the core signal is RNA processing together with one-carbon metabolism.","confidence":"Medium","size":13,"edges":14,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0008033","count":5},{"id":"GO:0009451","count":4},{"id":"GO:0006579","count":4},{"id":"GO:0046653","count":4}]},{"hash":"1727653808479343792","title":"Developmental ECM Remodeling and Protein Turnover","description":"Top GO terms indicate extracellular matrix organization and regulation of metallopeptidase activity, suggesting ECM remodeling during development, including vasculogenesis and neural development. The presence of ubiquitin-dependent protein catabolic processes and proteasome assembly implies active protein turnover accompanying this remodeling. Collectively, these terms point to developmental processes where ECM remodeling is coordinated with protein turnover in neural and vascular contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905050","count":2},{"id":"GO:0006511","count":2},{"id":"GO:2000721","count":2},{"id":"GO:0030511","count":2},{"id":"GO:0030198","count":2}]},{"hash":"846381468465066957","title":"Actin Dynamics in Neural Development","description":"The dominant signals are actin cytoskeleton remodeling (cytoskeleton organization, actin filament polymerization) with brain development as the key context, complemented by related adhesion and signaling processes (calcium release, IL-1 response) that often accompany developmental changes. ","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0007010","count":3},{"id":"GO:0030838","count":3},{"id":"GO:0002408","count":3},{"id":"GO:0045663","count":3}]},{"hash":"2134173971037655331","title":"Neural Sensory Signaling Pathways","description":"The terms show a mix of sensory stress responses (temperature, mechanical stimulus, pain) and core signaling processes (calcium release, GTPase regulation, ERK cascade, PI biosynthesis) along with dopamine uptake regulation. This points to a cohesive theme of stimulus-responsive signaling that could function in neural or sensor-related contexts. While some GO terms are broader or metabolic (diet-induced thermogenesis), the dominant pattern is signaling networks activated by sensory or stress stimuli. Therefore the label Neural Sensory Signaling Pathways captures the common thread across the cluster, even though not every protein is exclusively neuronal.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0051586","count":5},{"id":"GO:0051209","count":5}]},{"hash":"2275857482600106842","title":"Steroid hormone and lipid/vitamin metabolism","description":"The top GO terms cluster around steroid hormone biosynthesis/metabolism (estrogen biosynthetic process, C21-steroid hormone metabolic process, androgen catabolic process) and lipid/vitamin-related pathways (retinol metabolic process, very long-chain fatty acid biosynthetic process, phylloquinone catabolic process, melanin biosynthetic process). This combination suggests a group enriched for steroid signaling and lipid/vitamin metabolism.","confidence":"High","size":13,"edges":71,"triangles":218,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0006729","count":8},{"id":"GO:0042761","count":8},{"id":"GO:0042572","count":8},{"id":"GO:0042438","count":8}]},{"hash":"794067348132149152","title":"Glycosaminoglycan biosynthesis and sulfation","description":"The cluster\u2019s top terms center on sulfation and sulfated molecules (sulfate assimilation; protein sulfation) and on biosynthesis of glycosaminoglycans, notably heparan sulfate and related pathways (GAG biosynthesis and modification), plus N-acetylglucosamine metabolism. The embryonic neurocranium morphogenesis term supports a developmental ECM role for these processes. Some metabolism terms (ethanol/catecholamine) are peripheral but do not override the core GAG/sulfation theme.","confidence":"Medium","size":13,"edges":16,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":5},{"id":"GO:0015015","count":5},{"id":"GO:0030206","count":5},{"id":"GO:0006068","count":4},{"id":"GO:0048702","count":4}]},{"hash":"1105967944991121052","title":"Environmental Stimulus and Stress Response","description":"This cluster centers on responses to environmental cues and stress, spanning sensory processes (phototaxis, olfactory learning) and cellular responses to heat, mechanical stimuli, and lipopolysaccharide, along with inflammatory signaling. While a few terms (Notch regulation, ribosomal export, neuroendocrine differentiation) are less directly linked, the dominant theme is proteins involved in detecting and responding to environmental stimuli and stress, including sensory and immune pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042331","count":2},{"id":"GO:0045746","count":2},{"id":"GO:0008355","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1843174661934300651","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2}]},{"hash":"1235198260885331793","title":"Synaptic transmission and plasticity regulation","description":"The cluster is dominated by GO terms tied to neuronal signaling: long-term and short-term synaptic plasticity, synaptic vesicle priming, and catecholamine secretion, all pointing to neurotransmitter release and vesicle dynamics. Additional terms on PI dephosphorylation and Rho/Ras signaling relate to molecular pathways modulating synaptic activity. A few non-neuronal terms (e.g., acrosome reaction, blood vessel remodeling) exist but do not override the overarching neural communication theme. Overall, the proteins appear to function together in synaptic signaling and plasticity regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060304","count":4},{"id":"GO:0060291","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0035023","count":3}]},{"hash":"2029594756777193121","title":"Visual and Neural GPCR Signaling","description":"The enriched terms point to GPCR-driven signaling across vision and neural pathways: opsin/phototransduction and visual perception, plus GTPase regulation, ERK cascades, calcium release, and phosphorylation, with responses to morphine and amphetamine reflecting neuromodulatory signaling. Heart development likely reflects shared signaling components but is not central to the core theme. Overall, these terms cohere around GPCR-mediated neural and visual signal transduction.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0007507","count":8},{"id":"GO:0043278","count":8},{"id":"GO:0043950","count":8},{"id":"GO:0022400","count":8}]},{"hash":"2196164522253674890","title":"Innate and Adaptive Immune Signaling","description":"The cluster is enriched for immune-related GO terms, including adaptive immune response, innate immune response, and B cell receptor signaling, with supportive signals like IL-2 and IL-7 related responses. Although insulin receptor signaling terms appear, the dominant pattern centers on immune signaling pathways, making this a coherent immune signaling cluster with potential immunometabolic links.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:0045087","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0008286","count":4}]},{"hash":"895804159876115594","title":"Rho GTPase-mediated actin dynamics and cell migration","description":"This cluster is dominated by GO terms linking Rho/small GTPase signaling, actin cytoskeleton organization, and cell migration, including neural/glial migration patterns. Together they point to a shared function in remodeling the actin cytoskeleton to drive cellular movement. Some terms like sensory perception of sound and imaginal disc-derived leg morphogenesis appear less directly connected and may reflect broader developmental contexts, but the core theme remains cytoskeletal regulation of motility.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0002692","count":3},{"id":"GO:0007480","count":3},{"id":"GO:0016477","count":3}]},{"hash":"2066648656091666804","title":"RNA processing and translational regulation","description":"The top GO terms cluster around mRNA splicing (spliceosome), mRNA export, and translation control including initiation, reinitiation, IRES-dependent translation, and miRNA-mediated silencing. This suggests a functional group centered on post-transcriptional RNA processing and regulation of translation, including viral translation mechanisms. The combination of nuclear RNA processing and cytoplasmic translation control supports a cohesive RNA metabolism theme.","confidence":"High","size":12,"edges":20,"triangles":26,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0097010","count":5},{"id":"GO:0075525","count":5},{"id":"GO:0048025","count":5},{"id":"GO:0000380","count":5},{"id":"GO:1902625","count":5}]},{"hash":"2290651092179707726","title":"Regulators of Diverse Signaling Pathways","description":"The top GO terms point to modulation of multiple signaling processes (TGF-\u03b2 receptor signaling, ethylene signaling, ATP response) along with related regulatory activities (proteasomal degradation, complement cytotoxicity) and some stress/cell-cycle functions. The varied but recurrent theme is regulation of signaling and stress responses rather than a single pathway, suggesting a cluster of proteins that act as general modulators.","confidence":"Medium","size":12,"edges":29,"triangles":30,"max_degree":8,"top_function":"protein folding","top_go_terms":[{"id":"GO:0071318","count":4},{"id":"GO:0030511","count":4},{"id":"GO:0010105","count":3},{"id":"GO:0042220","count":3},{"id":"GO:1901389","count":3}]},{"hash":"2272380394766185555","title":"Macrophage Activation and Lipid Metabolism","description":"This cluster centers on macrophage-focused processes: activation, foam cell differentiation, lipid storage, and cholesterol efflux regulation, together with lipid transport and remodeling, suggesting a theme of macrophage-driven lipid handling in innate immunity, with signaling (ERK cascade) modulating these processes.","confidence":"Medium","size":12,"edges":10,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010744","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0010884","count":5},{"id":"GO:0002227","count":5},{"id":"GO:0043030","count":5}]},{"hash":"851166949781190390","title":"Hormone-responsive tissue development and remodeling","description":"The terms cluster around growth and remodeling of tissues (multicellular development, bone trabecula formation, positive regulation of epithelial cell proliferation in wound healing) and hormonal regulation (estrous cycle, response to thyroid hormone), with additional signals related to stress or xenobiotic exposure. This suggests proteins involved in development that are modulated by hormones and stress cues, with some related signaling and membrane organization (neutrophil degranulation, membrane raft assembly) supporting remodeling processes.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044849","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0060346","count":2},{"id":"GO:0007275","count":2}]},{"hash":"820997383840998920","title":"Epigenetic regulation of gene expression","description":"The top GO terms cluster around chromatin modification and transcription control, including histone methylation (H3-K27), demethylation (H3-K4), and histone deacetylase activity, as well as regulation of transcription by RNA polymerase II and heterochromatin formation. This suggests the proteins in this cluster are involved in epigenetic regulation that modulates gene expression; while related terms like spindle assembly or multicellular growth appear, they are likely secondary contexts for these core chromatin-focused functions.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:2000864","count":3},{"id":"GO:0061086","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1455380223256894455","title":"Cellular stress and apoptosis signaling","description":"The Top Terms show strong representation of intrinsic apoptotic signaling in response to ER and oxidative stress, UV exposure, GCN2-mediated signaling, and calcium ion transport regulation, indicating a core theme of cellular stress responses that can trigger apoptosis. While there are additional terms related to circadian entrainment, SMAD signaling, and IL-4 response, the dominant pattern across the cluster is stress-induced signaling pathways linked to cell fate decisions and apoptosis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070059","count":2},{"id":"GO:0060733","count":2},{"id":"GO:0043153","count":1},{"id":"GO:0008631","count":1},{"id":"GO:0009411","count":1}]},{"hash":"195167862991841119","title":"Tissue Development and Morphogenesis","description":"The proteins clustered here are enriched for GO terms tied to development across multiple tissues (face development, vaginal development, placenta development, growth plate cartilage growth) and associated signaling (p38MAPK cascade), suggesting a shared theme of tissue formation and morphogenesis. Some terms relate to transcription regulation or immune response, but the dominant pattern points to developmental processes.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0043433","count":8},{"id":"GO:0090188","count":8},{"id":"GO:0071222","count":8},{"id":"GO:0060068","count":8}]},{"hash":"677884254580254302","title":"Embryonic morphogenesis and transcriptional regulation","description":"This cluster combines transcriptional regulation (DNA-templated transcription, negative regulation of RNAP II transcription, preinitiation complex assembly) with diverse embryonic morphogenesis signals (endocrine pancreas development, neural crest cell migration, digestive tract morphogenesis, trachea cartilage development, ureteric bud morphogenesis, somatic stem cell maintenance), indicating a set of proteins coordinating gene expression with organ development.","confidence":"High","size":12,"edges":60,"triangles":168,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0000122","count":7},{"id":"GO:0031018","count":7},{"id":"GO:0090190","count":6},{"id":"GO:0001755","count":6}]},{"hash":"1824443172581525797","title":"Embryonic organogenesis","description":"The set of GO terms is dominated by diverse embryonic tissue development\u2014heart development, hindlimb morphogenesis, eye morphogenesis, placenta, pancreas, prostate, habenula\u2014with one general transcription regulation term. The common thread is embryonic organ formation, so an umbrella label of embryonic organogenesis fits.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0003148","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0035116","count":5},{"id":"GO:0021986","count":5}]},{"hash":"295178264610983604","title":"Auditory and Cardiac Signaling","description":"This cluster centers on terms related to the auditory system (sensory perception of sound, inner ear development) and cardiac electrical activity (SA node action potential, regulation of heart rate by cardiac conduction, atrial/ventricular depolarization/repolarization), suggesting proteins involved in neural signaling and excitability across both ear and heart tissues, with additional synaptic transmission and cell adhesion roles that support connectivity. ","confidence":"Medium","size":12,"edges":40,"triangles":51,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007626","count":3},{"id":"GO:0007268","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0007156","count":2}]},{"hash":"392697382474412489","title":"Mitochondrial energy metabolism and protein oligomerization","description":"The top GO terms cluster around proton transmembrane transport and aerobic respiration, both core to mitochondrial energy production, with additional signals of protein assembly (homotetramerization/oligomerization) and mitochondrial targeting-related processes, suggesting a mitochondria-centered functional group. ","confidence":"High","size":12,"edges":19,"triangles":13,"max_degree":8,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0009060","count":4},{"id":"GO:0042447","count":3},{"id":"GO:0051289","count":3},{"id":"GO:0006627","count":3}]},{"hash":"907644463934373684","title":"Broad substrate transmembrane transport","description":"These proteins are tied to diverse transmembrane transport processes, with GO terms spanning sialic acid, arabinose, galactose, phosphate, nitrate/nitrite, and xenobiotics transport, plus a vesicular neurotransmitter loading term. This points to a cluster of membrane transporters with broad substrate specificity, rather than a single specific substrate or pathway.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":8},{"id":"GO:0015751","count":7},{"id":"GO:0015757","count":7},{"id":"GO:0035435","count":7},{"id":"GO:0098700","count":7}]},{"hash":"1217484534984348080","title":"Pollen exine formation and anther dehiscence","description":"The dominant terms are pollen wall-related (exine formation, anther dehiscence), with supporting signals from protein N-linked glycosylation and nucleotide-sugar metabolism, pointing to glycosylated components involved in pollen wall assembly and release.","confidence":"Medium","size":12,"edges":58,"triangles":156,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006487","count":9},{"id":"GO:0010584","count":9},{"id":"GO:0009901","count":9},{"id":"GO:0071405","count":9},{"id":"GO:0046706","count":9}]},{"hash":"844924747339760783","title":"Membrane trafficking and vesicle formation","description":"Centered around membrane dynamics and vesicle trafficking: receptor internalization, sterol transport, and autophagosome/membrane formation terms. Paranodal junction assembly and prospore membrane formation point to membrane organization in specialized cell contexts, while other terms hint at regulatory signaling that can modulate these processes. Overall, the common thread is membrane- and vesicle-related assembly and trafficking across diverse systems.","confidence":"Medium","size":12,"edges":16,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0002233","count":2},{"id":"GO:0032120","count":2},{"id":"GO:0035039","count":2}]},{"hash":"851579928784208412","title":"Neural signaling and drug-induced behavior","description":"The set is dominated by nervous-system related GO terms: sensory perception (pain, visual), visual learning, and behavioral responses to drugs such as cocaine and morphine, together with signaling processes like protein phosphorylation and ERK1/2 cascade regulation. This points to a cohesive theme of neuronal signaling and drug-triggered behaviors, with ERK signaling as a common mechanistic thread. Heart development appears among terms but seems less central to the cluster\u2019s main function. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0010759","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0071380","count":8}]},{"hash":"704785226107988175","title":"Immune and Neural Signaling Pathways","description":"The cluster is enriched for immune signaling terms (T cell receptor signaling, mast cell degranulation regulation, MAPK/ERK cascade) and neural development cues (axon extension, cellular response to dopamine), with additional proliferation-related terms (DNA replication, mitotic cell cycle). The common thread appears to be regulation of signaling pathways in immune and neural contexts, though there is also cell-cycle activity. This supports a label centered on immune and neural signaling.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0045773","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0043366","count":9},{"id":"GO:1903351","count":9}]},{"hash":"1452024502411246154","title":"Microtubule-Driven Transport and Cytoskeleton Polarity","description":"The top GO terms center on plus-end-directed vesicle transport along microtubules, regulation and establishment of microtubule-based processes and cytoskeleton polarity, and related transport in neurons and during cell division, with additional notes on ciliogenesis and developmental processes. This suggests a cohesive cluster of proteins coordinating microtubule dynamics, vesicle transport, and polarity, spanning both mitotic and interphase cells as well as developmental contexts. ","confidence":"High","size":12,"edges":52,"triangles":135,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0072383","count":12},{"id":"GO:0032487","count":12},{"id":"GO:0032886","count":12},{"id":"GO:1990942","count":12},{"id":"GO:0072092","count":12}]},{"hash":"1299191765857314092","title":"Neural Sensory Signaling and Development","description":"This cluster centers on neural and sensory processing with supportive developmental and signaling roles. Prominent GO terms include sensory perception of pain, visual perception, and visual learning, along with positive regulation of ERK signaling and responses to prostaglandin. While some terms touch on broader development (multicellular organism and heart development) and apoptosis, the strongest signal is neural sensory signaling and stimulus-response pathways, suggesting a coherent neural-development related group.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0071380","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0007601","count":4}]},{"hash":"1550013483166038385","title":"Glycan biosynthesis and glycosylation","description":"The cluster shows enrichment in glycan-related processes: ganglioside biosynthesis, glycosylceramide and oligosaccharide metabolism, N-glycan processing, and protein sialylation, plus N-linked glycosylation via asparagine. This points to a cohesive role in glycan assembly and modification, with a few olfactory-development terms that may reflect broader expression patterns rather than a separate function. ","confidence":"Medium","size":12,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001574","count":2},{"id":"GO:0021628","count":2},{"id":"GO:0009846","count":2},{"id":"GO:0006491","count":2},{"id":"GO:0006677","count":2}]},{"hash":"2202273436412356736","title":"Nucleocytoplasmic transport and ER-Golgi trafficking","description":"The cluster centers on transport processes both across the nuclear envelope (ribosomal subunit export, mRNA splicing-related factors, nuclear pore assembly) and within the secretory pathway (ER-Golgi vesicle trafficking), with intracellular transport being a common theme. Regulatory terms like TORC1 signaling and GTPase activity regulation suggest these transport processes are coordinated by signaling. This combination justifies a label focused on intracellular transport and nucleocytoplasmic exchange.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2}]},{"hash":"176071343103919673","title":"Developmental transcription regulation","description":"This cluster centers on transcriptional control (RNA polymerase II initiation and its positive regulation) and various developmental differentiation processes (heart, myotube/intestinal epithelial lineages, granulocytes, hematopoietic stem cells), with deubiquitination as a regulatory mechanism. The overall theme is gene expression regulation during development, despite one outlier term (teichoic acid biosynthesis). ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":3},{"id":"GO:0019350","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0014904","count":2}]},{"hash":"55892878574653457","title":"Vesicle trafficking and exocytosis","description":"This cluster is defined by vesicle transport and secretion, with strong signals for endosomal transport, multivesicular body sorting, and calcium-dependent, dense-core granule exocytosis; filopodium assembly points to cytoskeletal remodeling coordinating trafficking. Some terms such as spermatid and heart development may reflect broader developmental roles of these proteins.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":3},{"id":"GO:0051489","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0071985","count":3}]},{"hash":"860909129847150297","title":"Rho/Rac GTPase signaling and lamellipodium formation","description":"The top GO terms point to regulation of Rho, Rac, and small GTPase-mediated signal transduction, along with lamellipodium assembly, indicating a strong theme of actin cytoskeleton dynamics driven by Rho-family GTPases. While there are also immune-related terms (e.g., B cell maturation, NK T cell differentiation, IL-4/IL-7 responses), the core signal is cytoskeletal remodeling and cell motility governed by Rho/Rac pathways, which explains the clustering of these functions.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0030032","count":7},{"id":"GO:0032633","count":7},{"id":"GO:0035020","count":7}]},{"hash":"612256356505556753","title":"TLR-Mediated Immune Activation","description":"The cluster is dominated by GO terms tied to Toll-like receptor signaling (TLR1 and TLR10 pathways) and general immune responses (response to fungus, B cell proliferation), indicating an innate immune activation theme. While there are some developmental and cytoskeletal regulation terms, they align with signaling and immune cell dynamics rather than a single developmental pathway. Overall, the shared function appears to be immune signaling and activation via TLR pathways, with supporting cytoskeletal and ubiquitination regulation aspects.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1902499","count":2},{"id":"GO:0048755","count":2},{"id":"GO:0048745","count":2},{"id":"GO:0034130","count":1},{"id":"GO:1900155","count":1}]},{"hash":"467319309684087846","title":"Unknown","description":"The terms span disparate processes (DNA repair, RNA processing and ribosome assembly, mitochondrial quality control, and cell division components) with no single dominant function linking most proteins, making a precise, cohesive label inappropriate.","confidence":"","size":11,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":3},{"id":"GO:0014070","count":3},{"id":"GO:0050859","count":3},{"id":"GO:0000423","count":2},{"id":"GO:0000028","count":2}]},{"hash":"2245822712221771952","title":"Diverse biosynthesis and energy metabolism","description":"The top GO terms are dominated by biosynthetic processes (poly-hydroxybutyrate, sterol, anthocyanin, SAM biosynthesis, etc.) and a mitochondrial electron transport step, suggesting the cluster centers on various biosynthetic pathways and related energy metabolism. A few outlier terms (e.g., B cell chemotaxis) exist but do not override the overall metabolic theme.","confidence":"Medium","size":11,"edges":27,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0035754","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0006122","count":2},{"id":"GO:1902653","count":2}]},{"hash":"689932845281885627","title":"Neuronal Development and Synaptic Regulation","description":"The set is dominated by GO terms tied to neuron projection development, vocalization behavior, and synaptic function (including excitatory postsynaptic potentials and synapse structural plasticity). The presence of Wnt signaling regulation and PKC signaling further supports neural development and signaling roles. Some terms like endocytosis and tight junction assembly may reflect broader cellular trafficking and barrier dynamics that can occur in neural contexts, but the strongest signal points to neuronal development and synaptic regulation.","confidence":"Medium","size":11,"edges":20,"triangles":12,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":5},{"id":"GO:0071625","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0090557","count":4},{"id":"GO:0006897","count":3}]},{"hash":"1370109938308532253","title":"Neural development and synaptic signaling","description":"The top GO terms are dominated by neural development and synaptic functions (hippocampus development, axonogenesis, myelination, glutamergic synaptic transmission, and dopamine response), indicating proteins involved in brain development and neural communication. A few terms touch on immune/dsRNA responses and collagen/morphogenesis, which may reflect broader tissue remodeling or annotation overlaps, but they do not override the central neural theme.","confidence":"Medium","size":11,"edges":8,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021766","count":5},{"id":"GO:0007409","count":5},{"id":"GO:0042552","count":5},{"id":"GO:0055072","count":5},{"id":"GO:0043330","count":5}]},{"hash":"1087444435581370250","title":"Embryonic organogenesis across tissues","description":"The top GO terms cluster around developmental processes and morphogenesis in multiple tissues (eye, pancreas, bone, neural crest, cranial skeleton, uterus, heart, kidney). Although a transcription regulation term appears, the dominant theme is embryonic organ formation across diverse organs, justifying a unified label of embryonic organogenesis across tissues.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0031016","count":8},{"id":"GO:0090190","count":8},{"id":"GO:0002076","count":8}]},{"hash":"1191633576288630051","title":"Transcription and cell cycle regulation with autophagy","description":"This cluster centers on transcriptional regulation (repression of RNA Pol II and DNA-templated transcription) together with cell-cycle control (regulation of the cell cycle, mitotic re-entry, spindle pole separation, and CDK activity), and includes autophagy initiation (ULK1/Atg1 complex assembly). Taken together, the terms suggest a regulatory module coordinating transcriptional programs with cell-cycle progression and autophagy, with some outliers like lactation or viral transcription that are less central to the core signal.","confidence":"Medium","size":11,"edges":19,"triangles":11,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0071157","count":6},{"id":"GO:1905866","count":5},{"id":"GO:0000320","count":5}]},{"hash":"94294225448504519","title":"Nucleotide biosynthesis and DNA precursor metabolism","description":"The terms strongly point to generation and salvage of nucleotides and related cofactors: coenzyme A and NAD+ biosynthesis, various nucleoside monophosphate phosphorylations, deoxynucleoside salvage, and DNA biosynthetic/dGTP metabolism. This pattern suggests a cluster of proteins involved in producing nucleotide precursors and cofactors essential for DNA replication and repair, rather than a specific single pathway.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":4},{"id":"GO:0046940","count":4},{"id":"GO:0046939","count":4},{"id":"GO:0009435","count":3},{"id":"GO:0016310","count":3}]},{"hash":"949885074382388266","title":"RNA processing and translation initiation","description":"The GO terms cluster around translation initiation (preinitiation complex formation, eIF4F assembly, IRES-dependent translation) and spliceosome-mediated mRNA splicing (including alternative splicing), suggesting proteins involved in RNA metabolism that bridge RNA processing with translation control. This justifies a label focusing on RNA processing and translation initiation. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0075525","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0045292","count":6}]},{"hash":"493484739098040052","title":"Proton gradient-driven ATP synthesis","description":"The top GO terms cluster around proton transmembrane transport, vacuolar acidification, and ATP synthesis driven by proton motive force (in mitochondria and at the plasma membrane), indicating a coherent energy metabolism module powered by proton gradients. While other terms touch on differentiation and cell motility, the dominant signal is proton-motive force\u2013driven energy production.","confidence":"High","size":11,"edges":42,"triangles":79,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0015991","count":5},{"id":"GO:0001649","count":4},{"id":"GO:0007035","count":4},{"id":"GO:1902906","count":4},{"id":"GO:0042776","count":4}]},{"hash":"1314796694322380241","title":"RNA processing and translation under stress","description":"The top GO terms cluster around RNA metabolism and control of gene expression at the RNA level (mRNA stability during stress, splicing, exonuclease activity, translation, miRNA silencing, and mitochondrial polyadenylation). While a few terms are unrelated noise (brain development, viral RNA perturbation, repair), the dominant signal ties to RNA processing and translation responding to stress.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0000398","count":7},{"id":"GO:0090503","count":7},{"id":"GO:0006412","count":6},{"id":"GO:2000637","count":6}]},{"hash":"989905628025491586","title":"Neuroimmune signaling and behavior modulation","description":"The GO terms show a blend of neural signaling (GABA pathway, conditioned taste aversion, locomotory behavior, cocaine response) and immune activity (defense response to bacterium, macrophage activation), with regulatory aspects (negative regulation of kinase activity, protection of neurons). This suggests a cluster where neuronal signaling and behavioral responses intersect with immune modulation, rather than a single, isolated pathway. Therefore, a concise label that captures both domains is appropriate.","confidence":"Medium","size":11,"edges":11,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0007214","count":3},{"id":"GO:0001661","count":3},{"id":"GO:0007626","count":3}]},{"hash":"1646500287782558077","title":"RNA Processing and Splicing Regulation","description":"The top GO terms are dominated by RNA processing, including rRNA processing, RNA splicing, and positive regulation of mRNA splicing via the spliceosome, with some transcription initiation regulation also present. A few terms related to hematopoietic/immune differentiation appear, but they are less represented, suggesting the core function of this cluster centers on RNA maturation and gene expression control rather than a single cohesive immune development theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":2},{"id":"GO:0046638","count":1},{"id":"GO:0030851","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0033077","count":1}]},{"hash":"181494747070390910","title":"ER stress\u2013driven translation and protein quality control","description":"This cluster centers on proteostasis under stress: terms like response to heat, ER stress\u2013related translation initiation, misfolded protein transport, and post-translational targeting to membranes indicate a focus on the unfolded protein response and folding/quality control pathways. Redox homeostasis also ties into stress responses, supporting a broader proteostasis/ stress-adaptation theme. A couple of terms (DNA replication, kinase regulation) appear as minor outliers rather than core drivers. ","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0031204","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006452","count":2},{"id":"GO:0036494","count":2}]},{"hash":"882612178021622078","title":"JNK\u2013JUN signaling and developmental regulation","description":"The top GO terms highlight JUN phosphorylation, a key marker of the JNK pathway, along with developmental processes such as heart and uterus development and anterior/posterior pattern specification. This suggests a core theme of tyrosine phosphorylation\u2013driven signaling integrated with developmental regulation. Additional terms related to immune signaling and cytoskeletal dynamics (podosome assembly, Fc receptor signaling, NK cell regulation) indicate peripheral involvement in immune-related pathways, but the central thread remains JUN/JNK\u2013mediated signaling in development. Confidence reflects the predominance of JUN-related and developmental terms with some broader functional links.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007258","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0060065","count":8},{"id":"GO:0045953","count":8},{"id":"GO:0045737","count":8}]},{"hash":"425400166717836528","title":"BMP signaling and neuronal development regulation","description":"This cluster shows a clear emphasis on negative regulation of BMP signaling and neural development-related pathways (e.g., dendritic spine development and BDNF receptor signaling), plus a few related regulatory processes like cell adhesion. Although there are some outliers (blood coagulation, spermatogenesis, transport), the dominant theme is modulation of signaling in development and neural contexts, supporting this label.","confidence":"Medium","size":11,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0043252","count":2},{"id":"GO:0045785","count":2},{"id":"GO:0090099","count":2},{"id":"GO:0007283","count":2}]},{"hash":"1419876783726772832","title":"Translation initiation and cell cycle regulators","description":"This cluster centers on translation initiation processes (formation of the translation preinitiation complex, translation reinitiation, and regulation of translational initiation) and cell division/mitotic cell cycle, suggesting a link between protein synthesis control and cell-cycle progression. RNA methylation and ubiquitination terms align with regulation of mRNA processing and protein turnover, respectively, supporting a cohesive theme. Some terms like skin development and synaptic plasticity may be peripheral annotations.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0043588","count":2},{"id":"GO:1903955","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006446","count":2}]},{"hash":"351041109075090691","title":"Innate and T cell immune signaling","description":"The GO terms show innate immune response-activating signaling, T cell cytokine production, and T cell apoptotic processes as prominent signals, with ancillary terms related to protein transport and ER retention. This combination points to a cluster enriched for immune signaling and adaptive T cell regulation, justifying a label focused on innate and T cell immune responses.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":2},{"id":"GO:0006621","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0002369","count":2}]},{"hash":"784837263889130392","title":"Unknown","description":"The top GO terms span spinal cord development, mitochondrial fission, GPCR signaling pathway, translation initiation, ubiquitin-dependent proteolysis, cell migration, and other disparate processes. With Edges: 0 and only a few terms at low counts, there is no clear, cohesive function tying all proteins together. Therefore a confident, representative label is not supported by the data.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0007205","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1341040021089057000","title":"Endocytosis and Lysosome Organization","description":"The top terms point strongly to endocytosis and lysosome organization, with multiple proteins linked to membrane trafficking and intracellular vesicle processing. Related terms like protein localization to synapse and cell recognition reinforce a theme of vesicle-mediated organization at cellular interfaces, which can extend to nervous system development and development-related cell interactions. Some terms (nephrocyte filtration, myoblast fusion) are more context-specific or peripheral, so while a vesicle trafficking core is suggested, the link isn\u2019t perfectly uniform across all terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071639","count":2},{"id":"GO:0042104","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0007040","count":2}]},{"hash":"1091483019607338272","title":"Multisubstrate membrane transporters","description":"Based on GO terms heavily centered on transmembrane transport of a wide variety of substrates (sugars like arabinose and galactose, sialic acid, phosphate ions, nitrate/nitrite, xenobiotics) plus a transporter-related process for neurotransmitter loading into synaptic vesicles, the proteins in this cluster appear to function broadly as membrane transporters rather than a single-substrate transporter. The diversity of substrates suggests a multisubstrate transporter theme rather than a specific transport pathway.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015751","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0015739","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1807084802677717182","title":"Actin Cytoskeleton Regulation and Cell Motility","description":"The top GO terms converge on actin cytoskeleton dynamics: Rho signaling regulation, Arp2/3-mediated actin nucleation, lamellipodium assembly, and general actin organization. Additional terms related to neuron projection development and polarity support a theme of cytoskeletal remodeling driving cell movement and protrusions.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:2000601","count":3},{"id":"GO:0007121","count":3},{"id":"GO:0035855","count":2},{"id":"GO:0031175","count":2}]},{"hash":"139810920627008187","title":"Developmental Morphogenesis and Transcription Regulation","description":"The GO terms cluster around tissue differentiation and morphogenesis across neural, vascular, pigment, and endocrine lineages, with a strong emphasis on transcriptional control (transcription by RNA polymerase II and regulation of transcription regulatory region DNA binding). Key neural-related terms (floor plate development, midbrain-hindbrain boundary morphogenesis, oligodendrocyte development) suggest a neural developmental program, while other terms reflect broader developmental differentiation. This combination supports a label focused on developmental morphogenesis coordinated by transcriptional regulation.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0030318","count":8},{"id":"GO:0014003","count":8},{"id":"GO:0060842","count":8},{"id":"GO:0003236","count":8}]},{"hash":"381912210808191489","title":"Mitotic progression and ubiquitin-mediated proteolysis","description":"Top GO terms point to mitotic control (exit from mitosis, G2/M transition, chromosome segregation) and ubiquitin-dependent degradation pathways (SCF, N-end rule, K11-linked), suggesting a cohesive cluster centered on mitosis regulation through proteasomal turnover of cell-cycle proteins. Some terms like viral process and inflammatory signaling are likely incidental noise. ","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":10},{"id":"GO:0070911","count":10},{"id":"GO:0007059","count":10},{"id":"GO:0000086","count":10},{"id":"GO:0031146","count":10}]},{"hash":"1791464078935074614","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":33,"triangles":52,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0031291","count":8},{"id":"GO:0006547","count":8},{"id":"GO:0050709","count":8}]},{"hash":"454794444267582143","title":"Forelimb skeletal morphogenesis and osteoblast\u2013chondrocyte differentiation","description":"The prominent GO terms center on embryonic forelimb morphogenesis, osteoblast development, and chondrocyte development/differentiation, including positive regulation of these differentiation processes and forelimb fate. This points to a cohesive module of proteins involved in bone and cartilage formation during forelimb development, likely coordinated via TGF-beta signaling.","confidence":"High","size":10,"edges":26,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":7},{"id":"GO:0071559","count":4},{"id":"GO:0002076","count":4},{"id":"GO:0002063","count":4},{"id":"GO:0045669","count":4}]},{"hash":"1868276342909244684","title":"Autophagy: mitophagy and macroautophagy","description":"The dominant GO terms are autophagy-related, especially autophagy of mitochondrion and macroautophagy, with nucleophagy-related notes as a subtheme. Other terms like protein sumoylation, tRNA wobble thiolation, and defense responses appear as secondary associations, but autophagy remains the core function tying this cluster together.","confidence":"Medium","size":10,"edges":24,"triangles":36,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":6},{"id":"GO:0030433","count":4},{"id":"GO:0002143","count":4},{"id":"GO:0050832","count":4},{"id":"GO:0006777","count":4}]},{"hash":"165937207945610311","title":"Ubiquitination-driven protein turnover","description":"Top terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination, negative regulation of ubiquitination), indicating a shared function in protein ubiquitination and turnover. While other terms touch on development and immune signaling, the core signal is ubiquitin-mediated protein modification, so the label fits best; the lack of edges suggests this cluster is defined by functional annotation rather than interaction data.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:1990390","count":6},{"id":"GO:0002467","count":6},{"id":"GO:0048741","count":6},{"id":"GO:0070294","count":6}]},{"hash":"488142805402688803","title":"Metabolic Energy and Lipid Regulation in Development","description":"This cluster combines GO terms linked to energy metabolism (acetyl-CoA catabolic process, ketone body biosynthesis, response to starvation), lipid handling (positive regulation of intracellular cholesterol transport, glyoxysome/peroxisomal organization), and broad developmental contexts (brain, kidney, adipose tissue). The recurring theme is how metabolic pathways and lipid regulation underpin developmental processes, with mitochondrial involvement and stress responses (apoptosis regulation) adding to the energy/readiness aspect. Overall, a cohesive label centers on metabolism and lipid regulation guiding development.","confidence":"Medium","size":10,"edges":18,"triangles":12,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0072229","count":4},{"id":"GO:0060612","count":4},{"id":"GO:1901029","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0010111","count":4}]},{"hash":"2278410968994025801","title":"Retinoid-driven embryonic development","description":"The cluster is dominated by GO terms linking retinoid metabolism and signaling (9-cis-retinoic acid biosynthetic process; retinol metabolic process) with developmental processes (neural tube development; olfactory pit development; ureter maturation). Retinoic acid signaling is a key regulator of embryogenesis, neural patterning, and sensory organ development, which provides a coherent theme despite accompanying metabolic terms. This suggests the proteins cluster around retinoid-regulated development pathways.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0055129","count":9},{"id":"GO:0042904","count":9},{"id":"GO:0060166","count":9},{"id":"GO:0035799","count":9},{"id":"GO:0015976","count":9}]},{"hash":"12159752515574621","title":"Nervous system development and axon guidance","description":"The terms are dominated by neural development and axon-related processes: Schwann cell development, regulation of photoreceptor axon guidance, and axon extension in regeneration, plus an acetylcholine receptor signaling link to neural communication. The mitochondrial translation and TCA cycle hints likely reflect energy needs in developing neural tissues rather than a dedicated metabolic cluster. Taken together, the cluster centers on nervous system development and axon guidance/regeneration, with some general developmental/metabolic terms accompanying it.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0009791","count":2}]},{"hash":"1602461928514813075","title":"Mitochondrial membrane dynamics and transport","description":"The cluster is characterized by terms on mitochondrial membrane fission, permeability regulation, and apoptotic changes, plus transmembrane transport of ADP, ornithine, and CoA. This cohesive set points to mitochondrial membrane dynamics and metabolite transport as the core function of the proteins, with insulin response and pregnancy signals as broader metabolic context.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":4},{"id":"GO:0090149","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0008637","count":2},{"id":"GO:0035435","count":2}]},{"hash":"1176460448893628125","title":"Mitochondrial tRNA aminoacylation and translation","description":"The cluster is dominated by GO terms for translation and multiple aminoacyl-tRNA synthetases (glycyl-, glutamyl-, prolyl-, methionyl-, and mitochondrial glycyl-tRNA aminoacylation), pointing to mitochondrial protein synthesis machinery. The presence of mtDNA metabolic process and respiratory chain terms reinforces a mitochondrial context, suggesting these proteins function together in mitochondrial translation and tRNA charging.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006424","count":2},{"id":"GO:0006433","count":2},{"id":"GO:0006431","count":2},{"id":"GO:0006426","count":1}]},{"hash":"308552104021253643","title":"Mitochondrial redox balance and protein import","description":"Most of the highlighted terms cluster around mitochondrial functions, including cellular responses to oxidative stress, redox/homeostasis, iron ion homeostasis, protein import into the mitochondrial intermembrane space, and maintenance of mitochondrial protein localization. Together they point to coordinated control of mitochondrial redox state and protein trafficking, with a few peripheral signals (e.g., testosterone response, axon regeneration) that are less central. This supports labeling the cluster as mitochondria-centered redox regulation and protein import processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0010940","count":2},{"id":"GO:0045041","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0034599","count":1}]},{"hash":"2319028578261724","title":"Ribosome biogenesis and RNA processing","description":"This cluster is enriched for ribosome-related processes (translation, ribosome biogenesis, LSU-rRNA maturation) along with multiple RNA-processing activities (mRNA splicing via spliceosome, tRNA processing, snRNA pseudouridine synthesis, rRNA maturation). The convergence on RNA maturation and ribosome assembly suggests a cohesive group centered on RNA metabolism and ribosome production, despite some additional splicing-related terms.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0048025","count":3},{"id":"GO:0031564","count":3},{"id":"GO:0008033","count":2}]},{"hash":"53372958575105628","title":"Neural development and synaptic signaling","description":"This cluster is enriched for neural-related terms: optic nerve morphogenesis, fasciculation of sensory neuron axon, and trans-synaptic signaling with modulation of synaptic transmission, suggesting a theme centered on nervous system development and neuron-to-neuron communication. Other terms like DNA replication and apoptotic processes appear but do not form the cohesive functional theme; overall the neural development/synaptic signaling signal is the most representative. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0021631","count":3},{"id":"GO:0001806","count":3}]},{"hash":"293145524769066707","title":"Neuronal development and mechanosensory signaling","description":"The top GO terms cluster around neural development: neuron migration, neuron differentiation, and positive regulation of mechanosensory behavior and detection of mechanical stimuli, which point to neural development and sensory processing. The presence of translation regulation hints at active protein synthesis during development, while cell cycle and cytokinesis terms may reflect proliferative phases common in developing tissues. Overall, the dominant theme appears to be neural differentiation together with mechanosensory signaling, rather than a single non-neural process.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":10},{"id":"GO:0001764","count":10},{"id":"GO:0051301","count":10},{"id":"GO:0051258","count":10},{"id":"GO:0030182","count":10}]},{"hash":"1093914861494407535","title":"Neural development and synaptic plasticity","description":"The top GO terms cluster around nervous system development and synaptic function\u2014axonogenesis, Schwann cell development, visual perception, and long-term synaptic potentiation\u2014indicating a focus on neural development and synaptic signaling. Regulatory signaling terms (positive regulation of GTPase activity, positive regulation of peptidyl-threonine phosphorylation, and negative regulation of kinase activity) support a signaling context relevant to neural pathways. While heart development and cardiac muscle contraction are present, they appear less central to the dominant neural theme, so the label reflects the strongest common function of the proteins in this cluster.","confidence":"High","size":10,"edges":9,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0060048","count":6},{"id":"GO:0006469","count":5}]},{"hash":"1311630596374473251","title":"RNA processing and cell cycle regulation","description":"This cluster is driven by RNA processing and genome maintenance signals: strong representation of mRNA splice site recognition, transcription elongation control, and DNA replication/checkpoint terms, plus related mitotic and microtubule-associated processes. The ubiquitination/ERAD terms indicate concomitant protein quality control, and peroxisomal protein import hints at broader proteostasis ties across compartments. Taken together, the proteins seem linked to RNA processing, transcription/cell cycle regulation, and protein homeostasis. ","confidence":"Medium","size":10,"edges":11,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045843","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0016558","count":2}]},{"hash":"559210215283639791","title":"Cytoskeletal signaling and vesicle trafficking","description":"The top GO terms cluster around regulation of Rho and Ras signaling, actin-related processes (filopodium assembly), vesicle-related events (synaptic vesicle priming, acrosome reaction), and adhesion/spreading, pointing to cytoskeletal dynamics and membrane trafficking. While there are also metabolic signaling terms (insulin pathway, glucose transport), the dominant theme ties signaling to cytoskeletal organization and vesicle movement, justifying this label.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0015758","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0007340","count":3}]},{"hash":"2300972783376259997","title":"Developmental Signaling and Differentiation","description":"The top GO terms reveal involvement of several major signaling axes (Hippo, Wnt, growth hormone receptor, T cell receptor, GM-CSF) and processes tied to differentiation and development (keratinocyte differentiation, cartilage condensation, labyrinthine layer vascular development, apoptosis). This pattern suggests proteins coordinating growth, cell fate decisions, and tissue formation rather than a single pathway, hence a label emphasizing developmental signaling and differentiation.","confidence":"Medium","size":10,"edges":16,"triangles":9,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035329","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0030216","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0060044","count":7}]},{"hash":"1178989553156193483","title":"Immune signaling and platelet-driven inflammation","description":"These terms cluster around inflammatory signaling and immune cell movement, including regulation of ERK signaling, calcium mobilization, chemotaxis of macrophages and eosinophils, LPS response, and platelet activation. While bone remodeling and heart development appear, the strongest shared theme is immune/inflammatory signaling with platelet involvement.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0051281","count":6},{"id":"GO:0046849","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0051930","count":5}]},{"hash":"513145531314971648","title":"Neural Development and Signaling Pathways","description":"The proteins map to multiple signaling cascades (Wnt, Hippo, Rho, calcium, GH signaling) and developmental processes (axonogenesis, retina vasculature development), with additional terms related to apoptosis and immune signaling. The common theme is signaling-driven neural/retinal development and growth, rather than a single precise function, justifying a label centered on neural development and signaling. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0061298","count":7},{"id":"GO:0007409","count":7},{"id":"GO:0045425","count":7}]},{"hash":"2002094106216764047","title":"Nutrient and Ion Transmembrane Transport","description":"The top GO terms are dominated by various transmembrane transport activities for glucose, pantothenate, myo-inositol, biotin, arginine, nitrite, and related substrates, plus manganese ion homeostasis. This points to a cluster of membrane transporters handling diverse small molecules and ions, rather than a single-substrate transporter. The common theme is transmembrane transport of nutrients and ions, with manganese homeostasis as a related regulatory aspect.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0071436","count":2},{"id":"GO:0015887","count":2},{"id":"GO:0008292","count":2},{"id":"GO:0015878","count":2}]},{"hash":"1662226119645141087","title":"Protein acetylation and chromatin regulation","description":"The top GO terms are dominated by acetylation-related processes (peptidyl-lysine acetylation, N-terminal acetylation, propionylation) and chromatin-associated terms (histone acetylation, subtelomeric heterochromatin formation), suggesting a cohesive theme around acetylation-driven regulation of chromatin and transcription. Some metabolic terms (glucosamine/N-acetylglucosamine, arginine biosynthesis) appear, but the strongest signal centers on acetyltransferase activity and chromatin dynamics.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":9},{"id":"GO:0006044","count":9},{"id":"GO:0061606","count":9},{"id":"GO:0017196","count":9},{"id":"GO:0032919","count":9}]},{"hash":"99941217777908567","title":"Mitochondrial dynamics and mitophagy","description":"The top GO terms are centered on mitochondria and autophagy-related processes: mitochondrial fusion, mitophagy (type 2), phagophore assembly site localization, and axonal transport of mitochondria, with Nebenkern assembly pointing to mitochondria-derived structures in sperm cells. This cluster collectively points to mitochondrial dynamics, turnover via autophagy, and mitochondrial transport. ","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0008053","count":3},{"id":"GO:0034497","count":2},{"id":"GO:0060192","count":2},{"id":"GO:0007287","count":2},{"id":"GO:0019896","count":2}]},{"hash":"554867152748756383","title":"RNA Modification and Methylation","description":"The top GO terms center on RNA modification (rRNA modification) and methylation, including N-terminal peptidyl-serine dimethylation and general methylation, with a secondary signal from transcription by RNA polymerase II. A few other terms hint at broader metabolic biosynthesis, but the strongest cohesive theme is RNA modification and methylation activity, making this label the best concise summary despite noise.","confidence":"Low","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0002347","count":1},{"id":"GO:0000154","count":1},{"id":"GO:0042220","count":1}]},{"hash":"2274954856533187588","title":"ER Stress, Proteostasis, and Translation Regulation","description":"The predominant GO terms relate to post-translational targeting to membranes, misfolded protein transport, redox homeostasis, and regulation of translation initiation in response to ER stress, plus translational frameshifting and ATP-dependent activity. This pattern points to a proteostasis network that coordinates protein folding, quality control, and translation in the context of ER stress and oxidative balance. The presence of DNA replication and parathyroid hormone signaling terms may reflect broader cellular context or pleiotropic roles, but do not override the central theme of protein homeostasis under stress.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":9},{"id":"GO:0045454","count":9},{"id":"GO:0006452","count":9},{"id":"GO:0036494","count":9},{"id":"GO:0032781","count":9}]},{"hash":"863692695450732882","title":"Neuronal synaptic vesicle cycling and signaling","description":"Based on the top GO terms, the cluster is dominated by synaptic transmission processes, including regulation of synaptic vesicle exocytosis and endocytosis, endocytic recycling, and excitatory postsynaptic potential, pointing to a core role in neuronal vesicle cycling and neurotransmitter release. Additional terms touch on neuronal development and general stress responses, but the vesicle trafficking theme is strongest.","confidence":"High","size":9,"edges":15,"triangles":8,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:1900242","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0032456","count":6},{"id":"GO:0000278","count":6}]},{"hash":"116374154719007815","title":"Nuclear import and pore complex assembly","description":"This cluster is strongly defined by GO terms about importing proteins into the nucleus (including NLS-bearing and ribosomal protein import) and assembling the nuclear pore complex, with intraciliary transport related to cellular transport processes. While there are a few regulatory terms (protein catabolic regulation, desumoylation), the dominant theme is nuclear import and NPC assembly, suggesting a cohesive function in nuclear transport machinery.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0000060","count":6},{"id":"GO:0051292","count":6},{"id":"GO:0035735","count":6},{"id":"GO:0006607","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1930462474919553152","title":"Eukaryotic translation initiation and preinitiation complex assembly","description":"The top GO terms cluster around initiation of translation and assembly of the preinitiation complex, including translation initiation factors (eIF4F), translation reinitiation, and IRES-dependent initiation, indicating a core function in starting protein synthesis. While a couple of spliceosome-related terms appear, they seem ancillary to the main theme. Overall, these proteins likely participate in eukaryotic translation initiation and assembling the initiation machinery.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0075525","count":5},{"id":"GO:0075522","count":5}]},{"hash":"500889564027265501","title":"Ubiquitin-dependent proteolysis in cell cycle control","description":"This cluster is dominated by terms related to ubiquitination and proteasome-mediated protein degradation (K11-linked ubiquitination, SCF-dependent proteolysis, N-end rule pathway), with strong links to mitotic control (mitotic cell cycle, G2/M transition). Although development and signaling terms appear, the ubiquitin-proteasome degradation theme best explains the cluster's function, particularly in regulating mitosis and protein turnover.","confidence":"High","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":9},{"id":"GO:0001701","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0000086","count":9},{"id":"GO:0031146","count":9}]},{"hash":"1077163461353013876","title":"Translation Machinery and p53 DNA Damage Response","description":"The cluster is dominated by translation-related GO terms (cytoplasmic and mitochondrial translation), suggesting proteins involved in protein synthesis. It also includes p53-mediated DNA damage response and transcription-related terms, hinting at a connection between translation and stress signaling pathways activated by DNA damage (e.g., gamma irradiation). The combination indicates a cohesive group coordinating translation with DNA damage response and apoptotic signaling.","confidence":"Medium","size":9,"edges":32,"triangles":62,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0002181","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0070126","count":2},{"id":"GO:1902164","count":1}]},{"hash":"2062278635117060566","title":"Unknown","description":"This cluster mixes immune-related processes (V(D)J recombination, B cell homeostasis, meiotic DSB formation), receptor trafficking and PI signaling (receptor recycling, endocytic recycling, phosphatidylinositol catabolic process), and tissue-specific responses (neuronal, locomotory, cardiac hypertrophy), with no single cohesive theme dominating the terms.","confidence":"","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0001921","count":2},{"id":"GO:2001135","count":2},{"id":"GO:0008344","count":2}]},{"hash":"462575681777773753","title":"Proteostasis and ubiquitin-mediated signaling","description":"This cluster centers on ubiquitin-related regulation and protein homeostasis, including ubiquitin-dependent proteolysis, deubiquitination, actin and histone ubiquitination, and aggresome assembly, along with related stress responses such as plasma membrane repair and innate immune signaling. While some GO terms touch on broader hormone signaling, the dominant theme is proteostasis through ubiquitin pathways.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001778","count":8},{"id":"GO:0045087","count":8},{"id":"GO:1900458","count":8},{"id":"GO:0070842","count":8},{"id":"GO:0043569","count":8}]},{"hash":"2189545904393959981","title":"Innate Immunity and Host-Pathogen Interaction","description":"The set is dominated by GO terms related to innate immune responses, neutrophil homeostasis, and signaling for phagocytosis (e.g., Fc-gamma receptor signaling, immunological synapse regulation). There are also terms touching on host-pathogen interactions, such as virion attachment and symbiont entry. A lens morphogenesis term appears less connected, suggesting some noise, but the core theme centers on immune defense and cell\u2013cell interactions in infection contexts. ","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002089","count":3},{"id":"GO:0051963","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0046814","count":3},{"id":"GO:0032649","count":3}]},{"hash":"1581350254397468258","title":"Chromatin acetylation and polyamine metabolism","description":"This cluster is dominated by acetylation-related processes: multiple GO terms for protein acetylation (N-terminal acetylation, peptidyl-lysine acetylation) and histone acetylation, plus subtelomeric heterochromatin formation, pointing to chromatin regulation. Supporting metabolic connections include N-acetylglucosamine/glucosamine metabolism and arginine-derived polyamine (spermine) acetylation/catabolism, which tie acetyl group supply and chromatin dynamics together. Overall, the terms coalesce around chromatin modification influenced by acetylation-linked metabolism.","confidence":"Medium","size":9,"edges":22,"triangles":21,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":5},{"id":"GO:0018003","count":4},{"id":"GO:0006044","count":4},{"id":"GO:0061606","count":4},{"id":"GO:0017196","count":4}]},{"hash":"173729860191564055","title":"Cardiac development and TGF-\u03b2 signaling","description":"The top GO terms are dominated by TGF-\u03b2 receptor signaling and SMAD complex assembly, pointing to TGF-\u03b2 pathways, while several terms specifically describe heart development (ventricular myocardium morphogenesis, heart trabeculae formation) and cardiac muscle function (calcium release from sarcoplasmic reticulum), suggesting a cluster centered on cardiac development and signaling with TGF-\u03b2 as a core driver.","confidence":"High","size":9,"edges":13,"triangles":11,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007179","count":7},{"id":"GO:0007183","count":7},{"id":"GO:0006463","count":5},{"id":"GO:0046661","count":5},{"id":"GO:0014808","count":5}]},{"hash":"1849472467125787099","title":"Microtubule dynamics and mitotic processes","description":"This cluster is dominated by GO terms related to microtubule organization, polarity, transport along microtubules, and mitotic events (e.g., plus-end vesicle transport, microtubule cytoskeleton polarity, mitotic metaphase chromosome recapture, axonemal depolymerization). Developmental terms likely reflect microtubule-mediated patterning and cell division during growth. Overall, the proteins appear tied to microtubule dynamics and mitosis more than to other pathways.","confidence":"High","size":9,"edges":26,"triangles":38,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":5},{"id":"GO:0072383","count":4},{"id":"GO:0032487","count":4},{"id":"GO:0032886","count":4},{"id":"GO:1990942","count":4}]},{"hash":"2127768624114292222","title":"Multitissue Developmental Signaling","description":"The top GO terms cover a broad range of developmental and differentiation events across tissues, including neural differentiation, myoblast fusion, nephric duct morphogenesis, salivary gland boundary specification, forebrain cell migration, and hemidesmosome assembly, together with central signaling pathways such as PI3K/AKT and Rho. This pattern suggests the proteins participate in general regulatory networks that guide tissue development and cell differentiation rather than a single, coherent pathway or process. Therefore, the cluster is best described as multitissue developmental signaling.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0001779","count":6},{"id":"GO:0043491","count":6},{"id":"GO:0007520","count":6},{"id":"GO:0007432","count":5}]},{"hash":"2229149288857120978","title":"Ciliogenesis and tissue development","description":"This cluster features strong signals for development across tissues (neurogenesis, nervous system development, heart development, spermatogenesis) and cilium-related transport (intraflagellar transport, intrafiliary transport). Apoptosis appears as a general process, while immune terms are present but less dominant, suggesting the core theme is ciliogenesis-associated tissue development rather than immunity.","confidence":"Medium","size":9,"edges":31,"triangles":59,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0022008","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0050852","count":3}]},{"hash":"946714523137025681","title":"Mitochondrial protein synthesis and respiration","description":"This cluster is driven by translation-related terms, including GO:0006412 (translation) and several mitochondria-specific tRNA aminoacylation processes (mitochondrial glycyl- and threonyl-tRNA aminoacylation) along with mitochondrial DNA metabolic process and respiratory chain activity, pointing to mitochondrial gene expression and energy production. The combination suggests proteins involved in mitochondrial translation machinery and assembly/function of the respiratory complexes; a few terms may reflect broader nucleotide metabolism or noisy annotations, but the core theme is mitochondrial translation and respiration.","confidence":"High","size":9,"edges":31,"triangles":52,"max_degree":8,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0070584","count":4},{"id":"GO:0022904","count":3},{"id":"GO:0015966","count":3},{"id":"GO:0016260","count":3}]},{"hash":"1780273868541415454","title":"Mitochondrial and cytosolic tRNA charging and translation","description":"Reason: The top GO terms are dominated by tRNA aminoacylation (lysine, aspartate; including mitochondrial variants) and translation, with supporting signals from tRNA wobble modification and mitochondrial tRNA processes. This points to a cluster of proteins involved in protein synthesis machinery, particularly tRNA charging in both cytosol and mitochondria. DNA repair and telomere maintenance terms are present but less central, likely reflecting broader genome maintenance roles or annotation overlap rather than a single cohesive function.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0002101","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0070154","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1560966725832049517","title":"Neural development and synaptic trafficking","description":"These proteins show enrichment for neural development and synaptic localization/trafficking processes, including dendrite development, receptor localization to synapse, exocytosis, Golgi localization, and cochlea morphogenesis, pointing to a cohesive theme of neural morphogenesis and synaptic organization.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016358","count":4},{"id":"GO:2000009","count":3},{"id":"GO:0022007","count":3},{"id":"GO:0097120","count":3},{"id":"GO:0035640","count":3}]},{"hash":"1488761979983427510","title":"Developmental signaling and morphogenesis","description":"The terms point to epithelial-mesenchymal signaling, organ morphogenesis (ureteric bud branching), and differentiation processes (chondrocyte, macrophage), alongside signaling cascades (ERK/MAPK, PI3K, TGF-beta) and mechanotransduction. This suggests a cohesive theme of developmental signaling guiding tissue formation across multiple lineages rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060684","count":5},{"id":"GO:0001658","count":5},{"id":"GO:0002062","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0000186","count":4}]},{"hash":"65141038927440049","title":"RNA processing and translation initiation factors","description":"Top GO terms cluster around RNA metabolism (mRNA processing/export/splicing) and translation initiation (eIF4F complex assembly, IRES-dependent initiation). This points to a group of RNA processing and translation initiation factors. Minor viral/developmental terms are present but do not dominate.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0097010","count":2},{"id":"GO:0075525","count":2}]},{"hash":"677790774494272772","title":"Cardiovascular and neural organogenesis signaling","description":"The cluster\u2019s top GO terms center on heart development, angiogenesis, axonogenesis, and multicellular organism development, with supportive hints from myoblast fusion and visual perception. This points to a cohesive theme of developmental signaling guiding cardiovascular, muscular, and neural organogenesis, with ongoing regulation of signaling pathways (phosphorylation) and stimulus responses (prostaglandin E). Overall, a developmental, tissue-patterning role best fits the collection of functions.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071380","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060079","count":4}]},{"hash":"619778835661809801","title":"TLR-NF-\u03baB Innate Immune Signaling","description":"This cluster is dominated by GO terms for Toll-like receptor signaling (TLR1, TLR9), lipopolysaccharide response, and negative regulation of canonical NF-\u03baB, indicating innate immune sensing and transcriptional regulation of immune genes. DNA-templated transcription supports a general transcriptional response; a few development-related terms may reflect pleiotropy or annotation noise. Overall, the common theme is innate immune signaling via TLRs and NF-\u03baB.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":7},{"id":"GO:0071222","count":7},{"id":"GO:0001657","count":5},{"id":"GO:0043124","count":5},{"id":"GO:0034162","count":5}]},{"hash":"1742479829881611787","title":"Developmental Signaling and Cytoskeletal Organization","description":"This cluster links developmental processes (substantia nigra development; branching in salivary gland morphogenesis) with structural organization of the cytoskeleton (sarcomere organization; skeletal muscle thin filament assembly) and signaling regulation (peptidyl-tyrosine phosphorylation, VEGF receptor signaling). The presence of phagocytosis and platelet aggregation adds breadth to immune/hemodynamic roles, but the recurring themes are developmental signaling and cytoskeletal remodeling across tissues. Therefore the label Developmental Signaling and Cytoskeletal Organization captures the core shared function.","confidence":"Medium","size":9,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":6},{"id":"GO:0045214","count":4},{"id":"GO:0006909","count":4},{"id":"GO:0070527","count":4},{"id":"GO:0050731","count":4}]},{"hash":"967252717101883483","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019243","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0017001","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0034247","count":2}]},{"hash":"2084082779652136325","title":"Cardiac development and signaling","description":"The cluster is anchored by heart development and cardiac muscle contraction terms, suggesting a cardiovascular-focused group. Supporting terms point to signaling regulation (Wnt, SMAD) and tissue remodeling processes, with a few outliers like synaptic plasticity and zygote division. Overall, the dominant theme appears to be cardiovascular development and associated signaling pathways.","confidence":"Medium","size":9,"edges":11,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031914","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0070602","count":3},{"id":"GO:0060394","count":3},{"id":"GO:0060048","count":3}]},{"hash":"1605396630324206043","title":"Estrogen-responsive gonadal development and cytoskeletal signaling","description":"The top GO terms combine cytoskeletal dynamics (Rho signaling, actin organization) with reproductive development (response to estrogen, ovarian follicle development, male gonad development) and cell communication/migration (chemotaxis, gap junction assembly). Together, they point to a theme of estrogen-regulated gonadal development coupled with cytoskeletal remodeling and intercellular signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0007015","count":3},{"id":"GO:0043627","count":3},{"id":"GO:0031954","count":2},{"id":"GO:0045719","count":2}]},{"hash":"1626635525893448360","title":"Immune\u2013vascular development signals","description":"This cluster shows a strong enrichment for innate immune and inflammatory functions (complement activation, mast cell immunity, IL-1 response, regulation of platelet aggregation) alongside vascular development and signaling (BMP-related response, coronary vasculature development, VEGF-linked regulation). Although a couple terms are peripheral (tooth eruption, fatty acid import regulation), the core pattern links immune signaling with vascular development, suggesting a coordinated immune-vascular theme.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006957","count":3},{"id":"GO:0043152","count":3},{"id":"GO:0002448","count":3},{"id":"GO:0010748","count":3},{"id":"GO:0044691","count":3}]},{"hash":"138069566188452302","title":"Skeletal and neural development signaling","description":"This cluster is dominated by terms related to endochondral bone formation and cartilage development, along with nervous system development and neuropeptide signaling. Together these suggest a shared role in developmental signaling governing skeletal and neural tissue differentiation, with additional terms pointing to broader cellular signaling responses (e.g., stress-related and ion channel regulation) that may reflect general signaling activity within these developmental contexts.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060351","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0001958","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0019933","count":2}]},{"hash":"746499846539574422","title":"Ubiquitin-Dependent Stress Signaling and Cell Cycle","description":"The cluster centers on ubiquitin-mediated regulatory processes (N-end rule pathway, K11-linked ubiquitination) and stress-related signaling (JNK cascade, interleukin-1 response), with connections to cell-cycle control (exit from mitosis, spindle checkpoint deactivation) and DNA repair. This suggests a cohesive theme where ubiquitin turnover links stress responses to mitotic regulation and genome maintenance.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071596","count":8},{"id":"GO:0070979","count":8},{"id":"GO:0071347","count":8},{"id":"GO:0070423","count":8},{"id":"GO:0043524","count":8}]},{"hash":"1817630208427966433","title":"ER Stress\u2013Linked Translation and Protein Quality Control","description":"The cluster centers on ER stress\u2013driven translation initiation, post-translational targeting to membranes, and misfolded protein transport, with redox homeostasis supporting ER conditions, indicating a cohesive protein quality control theme during stress.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0006452","count":3},{"id":"GO:0036494","count":3},{"id":"GO:0032781","count":3}]},{"hash":"797235324112579942","title":"Neuronal development and synaptic function","description":"The cluster strongly centers on nervous system processes: axonogenesis, visual perception, Schwann cell development, excitatory postsynaptic potential, and long-term synaptic potentiation, which together point to neural development and synaptic signaling. While there are a few outliers (mitotic cell cycle and plant ABA signaling), the dominant terms align with neuron formation and synaptic activity, making this a cohesive neural-focused cluster.","confidence":"High","size":8,"edges":16,"triangles":14,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0007409","count":8},{"id":"GO:0060079","count":8},{"id":"GO:0010800","count":8},{"id":"GO:0000278","count":8}]},{"hash":"1799593428704382340","title":"Mitochondrial protein import and hypoxia response","description":"GO term patterns center on mitochondrial localization and protein handling (inner membrane insertion, matrix import) with a concurrent cellular hypoxia response, indicating a mitochondria-centric cluster. Some terms like chemokine production and apoptosis are present but appear less central to the core function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032602","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0030150","count":2}]},{"hash":"1045556747080162211","title":"Cardiac and neural development signaling","description":"The cluster shows strong enrichment for heart-related terms (heart development, ventricular cardiac muscle tissue morphogenesis) alongside neural development terms (axonogenesis, retina layer formation, short-term memory), plus signaling and cytoskeletal processes (calcineurin-NFAT signaling cascade, positive regulation of exocytosis, microtubule nucleation). This suggests a cohesive developmental signaling program spanning cardiac and neural tissues, with exocytosis and cytoskeletal dynamics supporting morphogenesis. ","confidence":"High","size":8,"edges":10,"triangles":3,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0045921","count":7},{"id":"GO:0033173","count":7},{"id":"GO:1901841","count":7},{"id":"GO:0007409","count":7}]},{"hash":"1499594518999363804","title":"Ubiquitin-Dependent Degradation and TNF Signaling","description":"This cluster centers on ubiquitination-driven protein turnover (polyubiquitination, ubiquitin-dependent degradation, ERAD) and signaling pathways such as TNF signaling, including regulation of RIG-I\u2013mediated antiviral responses and receptor turnover like Wnt receptor catabolism.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0033209","count":2}]},{"hash":"332045658092484327","title":"B cell homeostasis and germinal center regulation","description":"The top GO terms are dominated by B cell\u2013related biology (B cell homeostasis, spleen development, germinal center formation) and innate immune response, suggesting these proteins cluster around B cell\u2013mediated immunity and germinal center dynamics. While a few terms hint at broader cellular processes, the strongest consistent theme is B cell\u2013centric immune regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001782","count":4},{"id":"GO:0048536","count":4},{"id":"GO:1903886","count":4},{"id":"GO:0001778","count":4},{"id":"GO:0045087","count":4}]},{"hash":"2142700916115505050","title":"Ubiquitin-Proteasome Pathway","description":"The top GO terms are dominated by ubiquitin-related processes (multiple linkage types: K11, K48, K63, K6) and ubiquitin-dependent protein catabolic pathways, including ERAD and SCF-mediated proteasomal degradation, with autoubiquitination and links to NF-kappaB signaling and cell cycle. This points to a cohesive cluster of proteins coordinating ubiquitination and proteasomal degradation, hence the label. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1688130443790868621","title":"DNA replication and cell cycle machinery","description":"This cluster centers on DNA replication and cell cycle processes (DNA replication, cell cycle, mitotic checkpoint signaling), with supporting GO terms related to transcription elongation and other essential cellular activities that often accompany replication and division, suggesting a cohesive theme around replication-associated cell cycle machinery.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006406","count":4},{"id":"GO:0070389","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0033314","count":2}]},{"hash":"1258022157542766193","title":"Apoptosis regulation via mitochondria","description":"The cluster\u2019s terms mainly point to controlling cell death, especially negative regulation of apoptotic signaling, mitochondrial involvement (cytochrome c release and depolarization), and neuronal apoptosis inhibition. While there are some transcriptional regulation and tissue homeostasis notes, the strongest common thread is regulation of apoptosis through mitochondrial pathways.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048873","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0000083","count":2}]},{"hash":"1154291432953449504","title":"Neural development and synaptic organization","description":"The terms point to neural development (spinal cord development, interneuron migration) and synaptic connectivity (synapse organization, regulation of dendritic spine development). Rho signaling ties to cytoskeletal dynamics underpinning migration and synapse formation, while transcriptional regulation and ion transport hint at broader neuronal function. The presence of some non-neural developmental terms (heart/paraxial mesoderm) suggests a broader developmental program, but the strongest signal is neural development and synapse organization.","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0048339","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1503908311052077432","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0007584","count":3},{"id":"GO:0043648","count":3},{"id":"GO:0009854","count":3},{"id":"GO:0050872","count":3}]},{"hash":"2296190584763507721","title":"Unknown","description":"The top GO terms span very diverse processes (DNA replication regulation, microtubule-based transport, plant hormone biosynthesis, RNA localization, mating-type heterochromatin, neural layer organization, integrin regulation, and spindle checkpoint signaling), with no single cohesive function tying all proteins together. While a subset hints at cell-cycle or cytoskeletal roles, the mixed biology prevents a clear, representative label. Hence, no specific, accurate cluster name can be assigned.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1903468","count":2},{"id":"GO:0072383","count":2},{"id":"GO:0009688","count":2},{"id":"GO:0032487","count":2},{"id":"GO:0051237","count":2}]},{"hash":"1110365658126448813","title":"Neurodevelopment and Growth Factor Signaling","description":"This cluster shows enrichment for nervous system development, larval CNS remodeling, and cellular responses to growth factor stimuli, along with GPCR signaling pathways that influence neuronal signaling. Together, these terms point to roles in neural development and signaling rather than general cellular processes, despite some broader terms like transcription regulation and protein stabilization. The dominant theme is neural development and growth-factor\u2013mediated signaling.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0030845","count":2},{"id":"GO:0071363","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0035193","count":2}]},{"hash":"1441176817706091375","title":"Neural and heart development with Rho-GTPase signaling","description":"The cluster shows enrichment for neural, brain, nervous system, and heart/skeletal development terms, together with Rho GTPase signaling and exocytosis-related processes (vesicle fusion, calcium-dependent exocytosis). This suggests a cohesive theme of developmental regulation in neural and cardiac contexts linked to cytoskeletal signaling and vesicle trafficking.","confidence":"Medium","size":8,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1738442589049092048","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":3},{"id":"GO:0043144","count":2},{"id":"GO:1905639","count":2},{"id":"GO:0001682","count":2},{"id":"GO:0031425","count":2}]},{"hash":"1171001796836995659","title":"Ribosome biogenesis and RNA processing","description":"The cluster is dominated by GO terms related to ribosome assembly and translation (assembly of preribosome large subunit, translation, eIF4F complex assembly, viral translational termination-reinitiation) and RNA processing (spliceosome-mediated splicing and alternative splicing, mRNA export). This points to a cohesive theme around RNA maturation and protein synthesis machinery, with a couple of outlier terms that may reflect multifunctional roles or annotation noise. Confidence: High","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0097010","count":2}]},{"hash":"38975003704176897","title":"DNA replication and genome maintenance","description":"This cluster is dominated by GO terms related to DNA replication, DNA duplex unwinding, SOS response, and viral genome replication, suggesting a shared role in genome duplication and DNA damage response, with incidental terms in heart development and metabolism.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0032508","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0006310","count":2}]},{"hash":"289349406960436659","title":"Neural and Visual System Signaling","description":"These proteins show a pattern dominated by visual processing and neural development terms (visual perception, visual learning, axonogenesis, sensory perception of pain), with supporting signaling-related GO terms (protein phosphorylation, calcium transport). While a couple of terms relate to other processes, the overall theme centers on neural/visual development and signaling, suggesting the cluster represents proteins involved in visual system maturation and neural signaling.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0006468","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0007409","count":3}]},{"hash":"122279874334209257","title":"Membrane Ion Transport and Signaling Regulation","description":"Top GO terms cluster around membrane-associated processes: ion transport (potassium import/export), calcium ion\u2013dependent exocytosis regulation, stabilization of membrane potential, and phospholipid metabolism (translocation and dephosphorylation). These suggest a coherent theme of membrane signaling and ion homeostasis, with hormonal response terms appearing as potential modulators. The label captures the core functions, though some terms indicate broader regulatory roles; hence a Medium confidence.","confidence":"Medium","size":8,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061092","count":8},{"id":"GO:0033574","count":8},{"id":"GO:0030026","count":8},{"id":"GO:0046839","count":8},{"id":"GO:0010107","count":8}]},{"hash":"700458951002148494","title":"Nuclear transcription regulation and RNA export","description":"The top GO terms point to nuclear-centric processes: transcription regulation by RNA Pol II, mRNA export from the nucleus, ribosomal subunit export from the nucleus, and import of hnRNP/splicing factors, plus related cell-cycle links (centrosome duplication and kinetochore localization). This suggests a cohesive cluster focused on nuclear transcription control, RNA processing, and nucleocytoplasmic transport, with some mitosis-related connections.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0042176","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0000055","count":5}]},{"hash":"655679149585793013","title":"Cytoskeletal Dynamics and Translation in Development","description":"The cluster includes terms tied to actin filament regulation and translation processes (negative regulation of actin filament bundle assembly; translational elongation; translational fidelity), suggesting a link between cytoskeletal remodeling and protein synthesis. It also features developmental and morphogenesis-related processes (fibroblast migration; germline cyst formation; larval muscle development; Hippo signaling; luteinization), indicating these proteins participate in growth, cell movement, and tissue formation. While a few terms are peripheral, the overall theme points to coordinated cytoskeletal control and translation in developmental contexts.","confidence":"Medium","size":8,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032232","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0006414","count":2},{"id":"GO:1990145","count":2},{"id":"GO:0035332","count":1}]},{"hash":"740131839866797894","title":"Craniofacial Skeletal Development","description":"The cluster is dominated by cartilage condensation, skeletal system development, bone trabecula formation, and face morphogenesis, pointing to craniofacial cartilage/bone formation as the core function. Other terms regarding vascular and regulatory processes are tangential and do not override the primary skeletal-development theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0060346","count":2},{"id":"GO:0033137","count":2},{"id":"GO:0051918","count":2}]},{"hash":"913756284685192292","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0045041","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0051084","count":1},{"id":"GO:0022417","count":1}]},{"hash":"436543263716296932","title":"Unknown","description":"There are 8 proteins with multiple edges, but no Top Terms are provided, so no shared GO function can be inferred; with GO annotations I could propose a specific label.","confidence":"","size":8,"edges":14,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"150540506297356349","title":"Innate immune and neural development signals","description":"The cluster shows immune-related GO terms (innate immune response, dsRNA response, LPS signaling) alongside neural development processes (axonogenesis, myelination, synapse assembly). This mix suggests proteins that participate in innate immune signaling within neural or developmental contexts, or shared regulatory pathways linking immunity and neurodevelopment. Some terms also point to broader development (convergent extension, skeletal system development), but the core theme appears to be immune signaling tied to neural/developmental processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0032762","count":3},{"id":"GO:0007409","count":3}]},{"hash":"1359519628416034902","title":"Ubiquitin-mediated protein turnover and mRNA splicing","description":"The prominent GO terms show multiple ubiquitination-related processes (K63- and K48-linked ubiquitination, ubiquitin-dependent protein catabolic process, and protein autoubiquitination), indicating a cluster centered on protein tagging and degradation. The additional term for mRNA splicing suggests a secondary RNA-processing association. Overall, the cluster best fits ubiquitin-dependent proteolysis with some RNA processing overlap.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070936","count":2},{"id":"GO:0045292","count":2}]},{"hash":"589971974346492265","title":"Developmental Regulation and Gene Expression","description":"This cluster centers on developmental processes across multiple tissues and species, with recurring emphasis on transcriptional control and post-transcriptional regulation (RNA polymerase II transcription, miRNA-mediated silencing) alongside various organismal development terms (head, nephric morphogenesis, eclosion, heart differentiation, phloem development, neuron fate specification). The common thread is regulation of development through gene expression mechanisms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035852","count":3},{"id":"GO:2000744","count":3},{"id":"GO:0072284","count":3},{"id":"GO:0045805","count":3},{"id":"GO:0055011","count":3}]},{"hash":"2225222796426596076","title":"Neural development and tissue morphogenesis","description":"The GO terms show a mix of neural development (ventricular zone neuroblast division, synapse assembly) and broader tissue morphogenesis (endothelial migration, collagen fibril organization, ossification, cell adhesion). This suggests a cluster of proteins involved in developmental processes and ECM-mediated tissue remodeling, spanning neural development, vasculature, and skeletal morphogenesis. Because the terms are diverse and the cluster has no connected edges, the label is a best-fit rather than a tightly defined module.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043031","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0050927","count":3}]},{"hash":"989586541283476387","title":"Cross-tissue Signaling Regulation","description":"These proteins map to GO terms across muscle differentiation, acrosome reaction, IL-1 signaling, IP3-related metabolism, GABAergic and glutamatergic signaling, blood pressure regulation, and B cell proliferation. The common thread is modulation of signaling pathways across diverse tissues, rather than a single pathway, justifying a cross-tissue signaling regulation label.","confidence":"Medium","size":8,"edges":12,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":4},{"id":"GO:2000344","count":3},{"id":"GO:0070498","count":3},{"id":"GO:1902634","count":3},{"id":"GO:0032228","count":3}]},{"hash":"552782862990618171","title":"Developmental Biology and Cilium Assembly","description":"The cluster is enriched for terms tied to organismal development (multicellular growth and development, brain and male gonad development) and cilium assembly, pointing to roles in developmental signaling and ciliogenesis. The inclusion of terms like splicing, Golgi-to-ER transport, and microtubule severing likely reflect broader cellular housekeeping connected to developing tissues, but the dominant signals are development and ciliogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0006890","count":5},{"id":"GO:0051013","count":5},{"id":"GO:0050731","count":5}]},{"hash":"642205064428018556","title":"Transcription Regulation and Cell Cycle Control","description":"This cluster is dominated by GO terms related to DNA-templated transcription and regulation of transcription, along with mitosis/cell cycle processes such as re-entry into the mitotic cycle, spindle pole separation, and CDK activity, suggesting a shared function in coordinating gene expression with cell division. Some terms (autophagy-related regulation, early viral transcription, lactation, and epithelial differentiation) are less central and may reflect broader regulatory roles or pleiotropy.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1905866","count":1},{"id":"GO:0000320","count":1}]},{"hash":"2293820815244450081","title":"Diverse membrane transporters","description":"This cluster is dominated by GO terms for transmembrane transport of a wide range of substrates, including arabinose, galactose, fucose, sialic acid, nitrate/nitrite, phosphate, vitamins, and xenobiotics; and even a vesicular transport process involved in loading neurotransmitters. The shared theme is membrane transport activity across diverse substrates, suggesting these proteins are transporters (and possibly vesicular transport components) rather than enzymes or structural proteins.","confidence":"High","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015751","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015707","count":3},{"id":"GO:0006855","count":3}]},{"hash":"514158261876989890","title":"Actin Cytoskeleton Remodeling in Neuronal Development","description":"This cluster's top GO terms emphasize actin cytoskeleton organization/dynamics (nucleation, polymerization), and neuronal development processes (neuron projection development, axonogenesis, substantia nigra development), with a secondary muscle-related term; collectively it points to actin remodeling during neuronal growth.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":3},{"id":"GO:0051639","count":2},{"id":"GO:0055003","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0090140","count":2}]},{"hash":"728326255806314284","title":"Podocyte development and ECM signaling","description":"These terms cluster around podocyte biology, with metanephric podocyte development and extracellular matrix disassembly/cadherin-mediated adhesion indicating a kidney glomerulus context. PKC signaling, membrane raft localization, and TLR3 signaling point to membrane-associated signaling in these cells, supporting a podocyte-centric function. The lipid metabolism terms (SREBP pathway, cardiolipin regulation) are broader but can relate to membrane-related processes in podocytes. Overall, the cluster centers on podocyte development and ECM adhesion signaling, with some peripheral lipid signaling influences.","confidence":"Medium","size":7,"edges":11,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070528","count":5},{"id":"GO:2000049","count":5},{"id":"GO:1903905","count":5},{"id":"GO:0022617","count":5},{"id":"GO:0072249","count":5}]},{"hash":"2289340831650992843","title":"DNA replication and chromosome segregation","description":"This cluster shows strong representation of DNA replication (GO:0006260), centromeric/chromatin assembly (CENP-A containing chromatin assembly), and mitotic/spindle-related processes (mitotic DNA replication checkpoint signaling, microtubule severing). Together these terms point to a coordinated role in replication-associated chromosome maintenance and segregation during cell division. Other terms like transcription elongation and protein unfolding appear ancillary but do not override the central mitotic/chromosomal theme.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0061166","count":3},{"id":"GO:0033314","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0043335","count":3}]},{"hash":"331555637471021646","title":"Calcium signaling in neurons","description":"Most of the top GO terms point to calcium-dependent signaling involved in neuronal activity: calcineurin-NFAT cascade and its positive regulation, ryanodine calcium-release channel activity, and excitatory postsynaptic potential, plus cocaine response, which is a neural stimulant response. A few terms (DNA replication, meiotic cell cycle, isoprenoid biosynthesis, brassinosteroid signaling) are broader or less directly related, but the recurring calcium- and neuron-related signals suggest the cluster centers on calcium-mediated signaling in neurons.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009742","count":7},{"id":"GO:0033173","count":7},{"id":"GO:0042220","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0046086","count":7}]},{"hash":"134801462034377","title":"Ubiquitin and SUMO proteostasis under metal stress","description":"Top terms show a clear emphasis on protein quality control: ubiquitin-dependent ERAD and ubiquitin-dependent protein catabolic process, plus protein sumoylation. The presence of GO terms for cellular responses to cadmium, arsenic, and methylmercury suggests the cluster is enriched for stress responses to heavy metals. Other terms like glycoprotein catabolic process or developmental terms may reflect broader annotations, but the dominant pattern centers on proteostasis and post-translational modification under environmental stress. Therefore the label captures the core function of these proteins as regulators/mediators of protein turnover in metal stress conditions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0016925","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0046685","count":3}]},{"hash":"704055634843632856","title":"Chromosome maintenance during cell division","description":"Dominant terms indicate chromosome maintenance and mitotic processes (DNA replication, CENP-A chromatin assembly, mitotic DNA replication checkpoint signaling, and microtubule dynamics). Some terms (ER polarization, protein unfolding, glycosylation) are less connected and may reflect broader cellular stress or housekeeping functions. Overall, the cluster aligns best with chromosome maintenance during cell division.","confidence":"Medium","size":7,"edges":12,"triangles":10,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061166","count":4},{"id":"GO:0033314","count":4},{"id":"GO:0032968","count":4},{"id":"GO:0043335","count":4},{"id":"GO:0051013","count":4}]},{"hash":"1787115420856781398","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"The top GO terms cluster around ubiquitin-dependent protein turnover, including proteasome-mediated degradation, ERAD, APC/SCF-dependent catabolic processes, and deubiquitination. While additional terms touch on translation initiation and spliceosome assembly, the dominant theme is protein quality control and degradation via the ubiquitin-proteasome system, with supporting links to translation regulation. Confidence: Medium","confidence":"","size":7,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0016579","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0010950","count":2},{"id":"GO:0043161","count":2}]},{"hash":"833142305131573071","title":"Chromatin assembly and transcription regulation","description":"The terms point to nuclear processes: CENP-A chromatin assembly, regulation of RNA polymerase II transcription preinitiation complex assembly, and chromatin-related regulation like cell shape and chromatin remodeling. Developmental and lineage terms (osteoblast differentiation, spermatogenesis, pro-B cell differentiation, dosage compensation) can reflect context-specific regulatory roles that are downstream of chromatin and transcription control. Taken together, the cluster seems centered on gene expression control via chromatin organization and transcription initiation, with some contextual differentiation signals.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0002227","count":2},{"id":"GO:0007283","count":2}]},{"hash":"121580951720529436","title":"Cross-tissue Development and Regulation","description":"The top GO terms cover diverse developmental processes across multiple tissues (palate, brain, muscle, gonads, pituitary, pancreas) and include a regulatory aspect (negative regulation of transcription by RNA Pol II). This points to a cluster of proteins involved in broad developmental regulation across tissues rather than a single tissue-specific function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1878428411224197342","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0031291","count":3},{"id":"GO:0006547","count":3},{"id":"GO:0050709","count":3}]},{"hash":"1677721249126535433","title":"Developmental morphogenesis across tissues","description":"These terms cluster around developmental processes across multiple organs (e.g., corticospinal tract morphogenesis, lung branching morphogenesis, ureter maturation, Purkinje myocyte development, radial glial differentiation, blood vessel lumen formation, keratinization). The GO terms span nervous system, vascular, epithelial, and organogenesis categories, with no single coherent pathway tying all proteins together. Therefore this broad label best reflects the cluster\u2019s theme, though it lacks high specificity.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045317","count":7},{"id":"GO:0032773","count":7},{"id":"GO:0035249","count":7},{"id":"GO:0035799","count":7},{"id":"GO:0021957","count":7}]},{"hash":"486960141320999295","title":"Multisystem Development and Differentiation","description":"The GO terms point to development and differentiation processes across diverse tissues (head, spinal cord, heart, phloem) and include broad regulatory activities (transcription by RNA Pol II, miRNA-mediated gene silencing). This suggests a general theme of developmental regulation across multiple organ systems rather than a single, cohesive pathway. However, the diverse, cross-tystem terms reduce confidence to a medium level.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035852","count":7},{"id":"GO:2000744","count":7},{"id":"GO:0072284","count":7},{"id":"GO:0045805","count":7},{"id":"GO:0055011","count":7}]},{"hash":"806721252094669241","title":"Embryonic organogenesis and neural development","description":"This cluster centers on embryonic morphogenesis across multiple organs (limbs, heart, uterus, spleen, lung) and includes neural lineage differentiation (dopaminergic neurons) and somitogenesis regulation. The common theme is broad embryonic development and organogenesis rather than a single tissue-specific function, making \"Embryonic organogenesis and neural development\" a concise, representative label.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035116","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0035115","count":5},{"id":"GO:0071542","count":5},{"id":"GO:0007507","count":4}]},{"hash":"340983089925405515","title":"Embryonic Organ Morphogenesis","description":"This cluster is dominated by GO terms related to the development and morphogenesis of various organs (pancreas, heart atrial septum, ureteric bud branching, neural crest migration, digestive tract). There are supporting terms on epigenetic and transcriptional regulation, suggesting regulatory control during embryogenesis. Overall, the main theme is embryonic organ morphogenesis.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":4},{"id":"GO:0043046","count":3},{"id":"GO:0048298","count":3},{"id":"GO:0010452","count":3},{"id":"GO:0003289","count":3}]},{"hash":"1114976344400840120","title":"Skeletal development and organ morphogenesis","description":"The top GO terms are dominated by bone-related processes (bone resorption and intramembranous ossification) with additional signals of broader organ morphogenesis (lung development). Some terms involve immune or hormonal responses that don\u2019t fit neatly, but the strongest and most common signals point to skeletal formation and embryonic organ development overall. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0001957","count":2},{"id":"GO:0060441","count":2},{"id":"GO:0097067","count":2}]},{"hash":"20603161470100526","title":"Actin cytoskeleton remodeling and cell motility","description":"The top GO terms center on actin dynamics\u2014polymerization, filament bundling, crosslinking, and barbed-end capping\u2014along with actin-driven processes like Rho signaling and ruffle assembly, which together point to actin cytoskeleton remodeling governing cell movement. JUN phosphorylation reflects signaling that can trigger cytoskeletal changes, and the presence of innate immune response terms suggests actin remodeling in immune cell motility as well. Overall, the cluster seems best described by actin-based cytoskeleton remodeling and cell motility.","confidence":"High","size":7,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007258","count":2},{"id":"GO:0070358","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0051764","count":2},{"id":"GO:1900029","count":2}]},{"hash":"359384585201232142","title":"Amino Acid Biosynthesis and NADPH Metabolism","description":"The top GO terms cluster around biosynthetic processes for specific amino acids (serine, proline, valine) and related metabolic activities (lipopolysaccharide biosynthesis, pentose biosynthesis) along with redox-linked steps (NADPH regeneration, PPP). While some terms hint at broader contexts (hypoxia response, photosynthetic carbon pathway), the common thread is metabolic biosynthesis coupled to redox/NADPH flux, which justifies a label focused on amino acid biosynthesis and NADPH metabolism. The absence of edges suggests these proteins may participate in distinct parts of this broad metabolic theme rather than a single complex. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006564","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0055129","count":1}]},{"hash":"546762161105423589","title":"DNA replication and chromatin remodeling","description":"The cluster\u2019s terms cluster around nucleosome positioning/mobilization, histone modification, and DNA replication, suggesting a coherent theme of chromatin dynamics linked to replication. While there are a few outliers related to mRNA decay and regulatory ncRNA silencing, the dominant signals describe chromatin state changes that accompany replication and genome regulation.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0016584","count":5},{"id":"GO:0042766","count":3},{"id":"GO:0006260","count":3},{"id":"GO:1904574","count":3},{"id":"GO:0042255","count":3}]},{"hash":"756937190662201563","title":"Multisubstrate Plasma Membrane Transport","description":"This cluster centers on transport across the plasma membrane for diverse substrates, including sugars (glucose, fructose, xylose, trehalose), urate, phosphate, selenite, and xenobiotics, reflecting a common theme of solute uptake/efflux rather than a single metabolic pathway.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043252","count":6},{"id":"GO:1990539","count":6},{"id":"GO:0015753","count":6},{"id":"GO:0015771","count":6},{"id":"GO:0097080","count":6}]},{"hash":"1649212641820608918","title":"DNA repair and stress response","description":"Based on the top terms, the cluster centers on genome maintenance (base-excision repair, DNA recombination) and various stress responses (response to xenobiotics, water deprivation) with accompanying metabolic processes (AMP salvage, phospholipid and PI metabolism). While some terms are obsolete or more general, the strongest cohesive theme is DNA maintenance coupled with stress adaptation, justifying this label.","confidence":"Medium","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":3},{"id":"GO:0006284","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1755686781205779159","title":"Lipid and pigment biosynthesis","description":"This cluster\u2019s top GO terms span multiple biosynthetic pathways\u2014especially lipids (wax, ether lipids, sterols, ubiquinone), pigments (anthocyanin-containing compounds), and related metabolites (PHB, UDP-L-arabinose, SAM). The common thread is broad biosynthetic activity across lipid and pigment/secondary metabolite spaces, rather than a single tightly defined pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0010025","count":3},{"id":"GO:0033358","count":3},{"id":"GO:1902653","count":3}]},{"hash":"583523068190238792","title":"Neuromast and Inner Ear Morphogenesis","description":"This cluster is driven by GO terms centered on development and morphogenesis of sensory organs related to hearing and balance, including posterior lateral line neuromast primordium migration, neuromast development, inner ear morphogenesis, and semicircular canal morphogenesis, as well as sensory perception of sound. A few terms touch on unrelated processes (spermatid nucleus elongation, histone H3-K9 dimethylation, apoptotic signaling), but the dominant themes support a shared role in sensory organ development. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048920","count":1},{"id":"GO:0042472","count":1},{"id":"GO:0048884","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0048752","count":1}]},{"hash":"112221721596924419","title":"ER Stress Response and Protein Quality Control","description":"The cluster shows strong signals for unfolded/misfolded protein response (GO:0006986, GO:0070843), ER-targeted protein transport (GO:0031204), and regulation of translation initiation in ER stress (GO:0036494, GO:0006452), which together point to an ER quality-control/UPR function. Additional terms like post-translational targeting to membranes and redox homeostasis support this theme, while a few terms (DNA replication, specific signaling) are likely incidental. Overall, the proteins appear to participate in managing protein folding and translation under ER stress.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006986","count":2},{"id":"GO:0031204","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0006452","count":1},{"id":"GO:0036494","count":1}]},{"hash":"1586859539184010155","title":"Cardiac muscle development and heart contraction","description":"The top GO terms cluster around cardiac muscle development, muscle cell development, cardiac muscle tissue development, and heart contraction, indicating these proteins are involved in cardiac muscle formation and function. A few terms about muscle organ development and swim bladder inflation support a muscle-tissue context, while minor metabolic/glycosylation annotations are likely incidental. This supports labeling the cluster as cardiac muscle development and heart contraction.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055013","count":2},{"id":"GO:0048747","count":2},{"id":"GO:0097084","count":2},{"id":"GO:0060047","count":2},{"id":"GO:0048738","count":2}]},{"hash":"82069953276263363","title":"Redox and Aromatic Amino Acid Metabolism","description":"The cluster is dominated by redox-related processes (redox homeostasis, cellular oxidant detoxification) and aromatic amino acid pathways (aromatic amino acid metabolic process, homogentisate catabolic process), with supporting notes on L-ascorbic acid metabolism, mitochondrial membrane potential regulation, and a starvation response, suggesting a metabolic module centered on redox-balanced aromatic amino acid degradation; an osteoblast differentiation term is likely a broader signaling connection rather than the core function.","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0009072","count":3},{"id":"GO:0051881","count":3},{"id":"GO:0009407","count":3},{"id":"GO:0045669","count":3}]},{"hash":"42454358825983004","title":"Potassium Transport and Membrane Potential Regulation","description":"The top GO terms cluster around potassium ion homeostasis and membrane potential processes: potassium transport across membranes, stabilization and regulation of resting membrane potential, and repolarization in excitable tissues. This indicates the proteins likely function in ion homeostasis and electrical excitability. A few terms relate to unrelated pathways, but the dominant theme is potassium-related membrane potential control.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0060075","count":2},{"id":"GO:0050976","count":2},{"id":"GO:0030322","count":2}]},{"hash":"1004040964507617915","title":"Developmental Growth and Neurodevelopment","description":"This cluster centers on developmental processes, notably neuron development and neural tube closure, with supporting terms for skeletal system development and general growth signaling (insulin receptor pathway) plus basic transcription and replication. The mix points to a developmental/proliferative program rather than a single specialized function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0035948","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1629256006128149099","title":"Secondary metabolite biosynthesis (vitamins and antibiotics)","description":"The strongest signals are biotin biosynthetic process, menaquinone biosynthetic process, and antibiotic biosynthetic process, indicating a bias toward production of small-molecule secondary metabolites. There are also RNA methylation terms and other metabolic processes, but the dominant theme across the top GO terms points to biosynthesis of vitamins/antibiotics, justifying a biosynthesis-focused cluster name.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":4},{"id":"GO:0009234","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0030488","count":2},{"id":"GO:0036265","count":2}]},{"hash":"958989923121142436","title":"Maternal-effect secretory pathway components","description":"The top GO terms point to core secretory pathway processes (ER to Golgi transport, COPI coating, Golgi ribbon formation, protein retention in the ER lumen, and regulation of ER exit), suggesting the cluster centers on ER-Golgi trafficking proteins. The presence of developmental terms related to maternal axis specification and placenta hints at maternal-effect roles in early development, while egg-laying and aggression terms imply broader behavioral connections. Together, these proteins likely function as secretory pathway components with maternal-developmental roles.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0070863","count":1}]},{"hash":"2080350813473277875","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000480","count":2}]},{"hash":"1072619115644846925","title":"ER-Golgi and Endosome Vesicle Transport","description":"The top GO terms cluster around intracellular vesicle trafficking, especially ER-to-Golgi and Golgi-to-ER (anterograde and retrograde) transport, endosome-to-Golgi transport, and overall protein transport. The positive regulation of GTPase activity aligns with Rab/Rho family control of vesicle budding and fusion. Some terms also touch on development and organelle biogenesis (dendrite and nervous system development, melanosome assembly), but the core signal is vesicle trafficking between key compartments.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0016358","count":4},{"id":"GO:0034498","count":4},{"id":"GO:0000278","count":3}]},{"hash":"527108527363502344","title":"Epithelial and Endothelial Polarity and Migration","description":"This cluster is best described by broader tissue remodeling involving epithelial cell polarity and cell migration, with an emphasis on endothelial delamination, suggesting vascular remodeling at epithelial interfaces. While some apoptosis-related terms and obsolete GO entries appear, the strongest signals center on polarity establishment and migratory behavior relevant to epithelial/vascular remodeling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0090162","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0097284","count":5},{"id":"GO:2001275","count":5}]},{"hash":"644288613994489800","title":"Actin-driven cell migration signaling","description":"The top terms emphasize actin-based structures and movement (lamellipodium assembly, cell migration) linked to regulation of GTPases and phosphorylation, pointing to cytoskeletal remodeling governed by signaling pathways. The presence of innate immune response and TGF-beta\u2013related signaling suggests contexts where motile cells respond to stimuli, while TORC1 signaling and mRNA transport indicate broader regulatory involvement. Overall, the cluster appears to center on cytoskeleton-driven migration modulated by signaling cascades.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0050731","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1264992207220860223","title":"Ubiquitination-Mediated Signaling","description":"Dominant term is protein ubiquitination (GO:0016567) with 4 occurrences, pointing to ubiquitination as a central regulatory mechanism in this cluster and its potential links to NF-kappaB regulation. However, the remaining terms span diverse processes (lipid catabolism, telomere maintenance, hormone signaling, cytokine production, epithelial polarity) with no single shared function, suggesting a heterogeneous mix centered on ubiquitination rather than a cohesive pathway.","confidence":"Low","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0032212","count":3},{"id":"GO:0046475","count":3},{"id":"GO:1904743","count":3}]},{"hash":"427754583617853470","title":"Developmental signaling and organogenesis","description":"The GO terms point to broad involvement in development and differentiation across multiple tissues (reproductive organs, nervous system, heart/pancreas), with signaling pathways like BMP and Wnt and hormonal responses (estrogen). This suggests the cluster's proteins participate in general developmental signaling and organogenesis rather than a single tissue-specific function.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":6},{"id":"GO:0071733","count":6},{"id":"GO:0071773","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0048485","count":6}]},{"hash":"165793637782236867","title":"Signaling and Development Regulators","description":"The cluster contains proteins involved in regulating signaling pathways (e.g., insulin/PI3K, Kit, Fc receptor) and processes such as apoptosis, cell adhesion regulation, and cell cycle control, plus developmental events like axonogenesis and uterus development. The common thread is modulation of signaling and developmental programs across immune, neural, and reproductive contexts.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":5},{"id":"GO:0006915","count":3},{"id":"GO:0038028","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0033629","count":3}]},{"hash":"1266699765833241841","title":"RNA processing and gene expression regulation","description":"The top GO terms are dominated by RNA-level regulation: ncRNA-mediated silencing, mRNA splicing (spliceosome), transcription termination, and mRNA polyadenylation, plus translation initiation complex assembly. This points to a cohesive function in RNA processing and general gene expression control, with a few development-related terms likely reflecting broader expression contexts.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0021957","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0097010","count":1}]},{"hash":"1771570901890248847","title":"Unknown","description":"The GO terms are mixed across ubiquitin-dependent protein degradation, ribosomal RNA maturation, circadian rhythm, dendrite development, and cell proliferation, with no single dominant theme tying the proteins together. This makes a coherent, specific label inappropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0000083","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0007584","count":2}]},{"hash":"1898323404096710097","title":"DNA replication and meiotic recombination proteins","description":"The cluster is enriched for core DNA replication terms (DNA replication, DNA-templated transcription, DNA biosynthetic process, DNA strand invasion) and meiosis-related terms (germarium-derived oocyte fate determination, male meiosis I, telomere maintenance via recombination, and resolution of meiotic recombination intermediates), suggesting a group of proteins involved in replication and meiotic recombination processes. Some terms like AMP salvage and protein homooligomerization may reflect broader cellular roles or complex formation but do not outweigh the replication/meiosis signal.","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0044209","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071897","count":2}]},{"hash":"527276466200656323","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"The cluster is dominated by GO terms tied to ubiquitin-mediated protein degradation and mitotic progression (K11-linked ubiquitination; ubiquitin-dependent proteolysis; APC/C-dependent and SCF-dependent proteasomal pathways; mitotic cell cycle; cell division). This points to a group of proteins functioning in proteasome-mediated turnover during mitosis. Some terms about ERAD and lipid biosynthesis appear as ancillary processes but do not override the central mitotic proteolysis theme.","confidence":"High","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0031145","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":4}]},{"hash":"442683205143641585","title":"Unknown","description":"The GO terms are diverse and span multiple regulatory processes (growth, transcription, apoptosis, TLR signaling, ubiquitination, cell cycle, etc.) with no clear single pathway or shared function that ties the proteins together, so a cohesive, specific label is not supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":2},{"id":"GO:0002315","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0000122","count":2}]},{"hash":"352887479560934990","title":"DNA Damage Repair and Genome Maintenance","description":"This cluster shows strong enrichment for DNA repair pathways (NHEJ and HR), DNA replication, and apoptotic response, indicating a common theme of maintaining genome integrity. The presence of meiotic cell cycle and replication terms supports roles in cell division and genome maintenance, while ubiquitin-dependent proteolysis terms suggest regulated turnover of DDR proteins. Together, these suggest a coherent DNA damage response/repair module.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0006303","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0051321","count":2},{"id":"GO:0006260","count":2}]},{"hash":"152259811565725002","title":"Chromatin Regulation and Developmental Differentiation","description":"The cluster shows enrichment for chromatin-related regulation (CENP-A chromatin assembly, nucleosome mobilization, and regulation of transcription preinitiation complex assembly) along with several development/differentiation processes (osteoblast differentiation, spermatogenesis, pro-B cell differentiation, sex-chromosome dosage compensation) and an innate mucosal immune term, suggesting a core theme of gene expression control intertwined with developmental pathways, even if some terms are less directly connected.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0042766","count":3},{"id":"GO:0001649","count":3},{"id":"GO:0002227","count":3},{"id":"GO:0007283","count":3}]},{"hash":"1795200030540308390","title":"Epigenetic Methylation and Transcription Regulation","description":"The cluster is driven by multiple methylation-related GO terms (rRNA methylation, histone methylation, peptidyl-arginine methylation) together with negative regulation of transcription by RNA polymerase II, pointing to epigenetic control of gene expression; other terms appear ancillary (development, metabolism, senescence).","confidence":"Medium","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0021983","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0031167","count":2}]},{"hash":"1777318265439817286","title":"Developmental Regulation and Organogenesis","description":"The top GO terms cluster around multicellular organism development across multiple organs (heart, pancreas, pituitary, neural crest, uterus) and include both tissue-specific developmental processes and transcriptional regulation, suggesting a group of proteins involved in developmental programs and organogenesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0021983","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0090190","count":5},{"id":"GO:0031018","count":5}]},{"hash":"65649624297973231","title":"Skeletal muscle actin-myosin filament assembly and contraction","description":"The cluster\u2019s terms center on skeletal muscle development (skeletal muscle fiber development, thin filament assembly) and actomyosin dynamics (actin filament bundle assembly, contractile ring assembly/contraction). Together these point to assembly and function of actin\u2013myosin filaments driving muscle contraction and related cell-shape changes, with supportive references to cytoskeletal polarity. ","confidence":"High","size":6,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":5},{"id":"GO:0042766","count":4},{"id":"GO:0030240","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0043983","count":4}]},{"hash":"331288228388914162","title":"RNA Methylation and Processing","description":"The cluster shows strong enrichment for RNA modification and processing terms (tRNA methylation, rRNA methylation, and mRNA capping) as well as protein arginine methylation, suggesting a core function in RNA maturation and methylation. The remaining terms (DNA replication/checkpoint signaling, chlorophyll biosynthesis, nodulation) appear as less coherent or plant-specific context, likely noise or indirect associations. Overall, the dominant theme points to RNA methylation/processing machinery.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0072428","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0036068","count":2},{"id":"GO:0009877","count":2},{"id":"GO:0019919","count":2}]},{"hash":"1742376416906624808","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0031424","count":3},{"id":"GO:0061146","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0072307","count":3}]},{"hash":"28161638373751910","title":"Nitrogen metabolism and transcription regulation","description":"The most represented GO terms cluster around nitrogen-related processes: nitrogen fixation; cellular response to nitrogen starvation; nitrogen catabolite repression of transcription. This points to a shared theme of responding to nitrogen availability and regulating gene expression accordingly, with transcriptional control of core promoter binding also appearing. Additional terms like response to glucose and protein homooligomerization fit within broader metabolic regulation but are less central. Some terms are obsolete, suggesting annotation noise, yet the dominant signal supports nitrogen metabolism regulation as the core function of this cluster.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050679","count":2},{"id":"GO:0009399","count":2},{"id":"GO:0009749","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0090295","count":2}]},{"hash":"1789017825416173396","title":"Amino acid and cofactor biosynthesis","description":"Top GO terms show multiple biosynthetic processes including amino acids (proline, lysine, isoleucine, alanine), pyruvate, biotin, and protoporphyrinogen IX, with some antibiotic biosynthesis. This pattern points to enzymes involved in constructing small-molecule metabolites and cofactors, rather than degradation or signaling pathways. Therefore the cluster likely represents amino acid and cofactor biosynthesis activities.","confidence":"High","size":6,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0055129","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0019878","count":2}]},{"hash":"1785303123893610273","title":"Nucleotide and cofactor biosynthesis","description":"This cluster centers on multiple nucleotide metabolic processes (AMP salvage, nucleotide phosphorylation, purine ribonucleotide interconversion, ADP/CDP biosynthesis) and cofactor biosynthesis (NAD+ and coenzyme A), suggesting a shared role in nucleotide metabolism and cofactor production; the liver development term appears as an outlier rather than a defining function.","confidence":"High","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0044209","count":6},{"id":"GO:0046041","count":6},{"id":"GO:0046939","count":6},{"id":"GO:0046940","count":6},{"id":"GO:0009435","count":6}]},{"hash":"643146307004852316","title":"Developmental signaling and protein regulation","description":"The top GO terms cluster around multicellular development and growth (developmental processes) and regulation of signaling and protein modification (phosphorylation and ubiquitination/ERAD), with additional notes on transport and organelle signaling. This pattern suggests a theme of development-associated signaling and protein regulation rather than a single tight pathway, despite diverse functions. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031954","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0006890","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0070979","count":3}]},{"hash":"1316830106610525971","title":"Developmental cytoskeletal regulation and signaling","description":"The proteins in this cluster point to a theme of developmental regulation coupled with cytoskeletal remodeling and signaling: actin (Arp2/3) regulation, microtubule severing, vesicle trafficking, and ubiquitination, alongside GO terms for brain and gonad development and overall multicellular growth. This combination suggests roles in coordinating cellular architecture with signaling during organismal development, rather than a single enzymatic activity.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034316","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0050731","count":2}]},{"hash":"1908609124845539631","title":"Chromatin Organization and Histone Modifications","description":"Top terms cluster around chromatin-related processes: nucleosome assembly/positioning, heterochromatin organization, establishment of protein localization to chromatin, and histone H3 methylation states (H3K27/H3K4), including obsolete entries. This coherently points to a module involved in chromatin architecture and histone modification.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":6},{"id":"GO:0098532","count":6},{"id":"GO:0097298","count":6},{"id":"GO:0070828","count":6},{"id":"GO:0071169","count":6}]},{"hash":"1655964422302750273","title":"Unknown","description":"The GO terms include ion transport and membrane excitability (potassium transport, calcium release, cardiac action potential), endocrine signaling (vasopressin and thyroid hormone response), and several developmental/metabolic processes, but there is no single, cohesive function that unites all six proteins. A clear, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":6},{"id":"GO:0086045","count":5},{"id":"GO:0043619","count":5},{"id":"GO:0014808","count":5},{"id":"GO:0002024","count":5}]},{"hash":"400040522070339460","title":"ER Stress\u2013Linked Translation Regulation","description":"The top GO terms cluster around translation and ER-associated protein handling: translation initiation regulation in response to ER stress, translational frameshifting, post-translational targeting to membranes, and misfolded protein transport. Redox homeostasis and negative regulation of protein kinase activity further suggest a stress-response context affecting protein synthesis and folding. A couple of terms (DNA replication, Hedgehog pathway regulation) are less connected, but the core theme points to ER-related translation regulation and quality control.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031204","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006452","count":2},{"id":"GO:0036494","count":2},{"id":"GO:0032781","count":2}]},{"hash":"1592772768395023033","title":"ER-Golgi Vesicle Trafficking","description":"This cluster is dominated by GO terms related to the ER-to-Golgi vesicle transport, COPI coating, Golgi ribbon formation, and regulation of protein exit from the ER, pointing to a shared role in the early secretory pathway and Golgi dynamics. Some terms (e.g., placenta development, axis specification) may reflect annotation noise or broader developmental associations, but the core signal centers on ER-Golgi trafficking.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0007311","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1156187796239725266","title":"Mitochondrial Ion and Nucleotide Transporters","description":"Based on the GO terms, the proteins are enriched for transport across mitochondrial membranes of Mn2+, phosphate, ADP, deoxynucleotides, and CoA, along with regulation of mitochondrial membrane potential and permeability. This suggests a coherent function as mitochondrial membrane transporters involved in moving ions and nucleotides/metabolites and in maintaining mitochondrial energetics; one unrelated term (female pregnancy) likely represents annotation noise.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":3},{"id":"GO:0008637","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0007565","count":2},{"id":"GO:0046902","count":2}]},{"hash":"2016421573672895887","title":"Cardiac muscle contraction and sarcomere organization","description":"Most top terms cluster around cardiac muscle contraction, sarcomere organization, and heart-rate modulation (GO:0060048, GO:0045214, GO:0060298, GO:0003065), suggesting proteins involved in the cardiac contractile apparatus and its regulation. A few terms pertain to vascular smooth muscle regulation, which fits within broader cardiovascular control, while a couple of terms (visual perception/phototransduction) appear to be outliers or annotation noise. Overall, the dominant theme is cardiac muscle function and sarcomere organization.","confidence":"High","size":6,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":6},{"id":"GO:0060298","count":5},{"id":"GO:0034609","count":5},{"id":"GO:1904706","count":5},{"id":"GO:0045214","count":5}]},{"hash":"45536724499913885","title":"Unknown","description":"The top GO terms are a mixed bag spanning neural development (neuron development, visual perception, sensory perception of pain), heart development, endocytosis, protein tetramerization, and metabolic/thermogenic processes (diet induced thermogenesis, cellular response to temperature stimulus). There isn\u2019t a single cohesive function or pathway that ties these terms together for the six proteins, so there isn\u2019t a clear, specific label that would accurately describe the cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0034260","count":2}]},{"hash":"1406838098688253248","title":"Blood coagulation and vascular inflammation","description":"Top terms cluster around blood coagulation, regulation of platelet activity, plasminogen activation, vascular tone (NO production and vasoconstriction), and inflammatory signaling (LPS response, IL-8, TGF-beta). This combination suggests proteins coordinating hemostasis with endothelial inflammation and vascular regulation, hence the label.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090331","count":3},{"id":"GO:0045429","count":2},{"id":"GO:0071636","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0007596","count":2}]},{"hash":"824774990526827934","title":"Unknown","description":"The GO terms spread across development, metabolism, signaling, and stress responses with no clear single function linking all six proteins, suggesting a heterogeneous set rather than a cohesive pathway. Terms include multicellular development, electron transport chain, prostaglandin signaling, xenobiotic response, insulin secretion regulation, diet-induced thermogenesis, pain perception, and temperature response.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0022900","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1717589326853628600","title":"Embryonic Development and Morphogenesis","description":"The proteins cluster around broad developmental themes: embryonic placenta and trophoblast differentiation, endocrine system development, pancreatic beta cell development, cartilage morphogenesis, and EMT-related heart formation, plus left-right patterning and transcriptional regulation. This mix suggests involvement in early development and multi-tissue morphogenesis with transcriptional control, rather than a single pathway, justifying a label centered on embryogenesis and morphogenesis.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060536","count":2}]},{"hash":"822736579243833270","title":"Keratinocyte differentiation and Notch\u2013integrin signaling","description":"The top GO terms cluster around epidermal development (keratinocyte differentiation) and signaling/adhesion through Notch processing and integrins, plus collagen organization, suggesting a cohesive module governing skin cell fate and cell\u2013ECM interactions. Immune-related terms (TNF response, lymphocyte chemotaxis) may reflect context-dependent regulation rather than a core function. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":4},{"id":"GO:0034612","count":4},{"id":"GO:0022011","count":4},{"id":"GO:0007220","count":4},{"id":"GO:0007229","count":4}]},{"hash":"657812529210160176","title":"ECM adhesion and signaling in migration and immunity","description":"Top GO terms center on adhesion, integrin signaling, and cell movement (substrate spreading, fibroblast migration), plus ECM-related processes (hyaluronan metabolism) and tissue-level interactions (T cell activation, pericardium morphogenesis). This suggests a cohesive theme of how cells adhere to the ECM and communicate signals to migrate and coordinate immune and tissue remodeling processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":5},{"id":"GO:0010763","count":5},{"id":"GO:0050731","count":4},{"id":"GO:0022011","count":4},{"id":"GO:0007229","count":4}]},{"hash":"139202559889687729","title":"DNA repair and translesion synthesis","description":"The Top Terms show DNA repair, UV-C response, nucleotide-excision repair, error-free and error-prone translesion synthesis, and DNA replication, indicating a cohesive theme of DNA damage recognition and lesion bypass during replication. Other terms like translation and tRNA modification are present but appear peripheral to the main DNA-maintenance theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0071494","count":1},{"id":"GO:0071897","count":1},{"id":"GO:0006297","count":1},{"id":"GO:0070987","count":1}]},{"hash":"1244608830283948751","title":"Transmembrane Ion and Metabolite Transporters","description":"The GO terms show clear transmembrane transport roles for a variety of ions (sodium, potassium, monoatomic anions) and metabolites (citrate, malate, succinate, etc.), plus regulation of phosphate transport and a response to arsenic-containing substances. This suggests a cluster of membrane transport proteins with diverse substrates rather than a single substrate family.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098656","count":1},{"id":"GO:0015746","count":1},{"id":"GO:0015700","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0015743","count":1}]},{"hash":"2038160916256278832","title":"Neural development and synapse formation","description":"The cluster\u2019s GO terms cluster around nervous system development and synaptic connectivity, including nervous system development, positive regulation of synapse assembly, pyramidal neuron differentiation, axonal fasciculation, and myelination, along with cell-cell adhesion. These point to a coherent theme of neural differentiation and synapse formation, with a few non-neural terms present but not defining the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0007432","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0021859","count":2}]},{"hash":"935474462224687426","title":"Dermal and vascular development with ECM remodeling","description":"This cluster centers on multiple developmental processes: skin development, cell migration in sprouting angiogenesis, and collagen fibril organization, pointing to tissue formation and extracellular matrix remodeling. Other connected terms like brown fat cell differentiation and endodermal differentiation suggest broader differentiation programs across tissues (skin, adipose, endothelium) with adhesion and receptor clustering playing a role in signaling during development. Overall, a cohesive theme of tissue development and vascular/ECM remodeling best fits the set of GO terms.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":4},{"id":"GO:0043277","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0002042","count":4},{"id":"GO:0030199","count":3}]},{"hash":"2139978191179402941","title":"Kinase signaling and cell cycle regulation","description":"The cluster is enriched for positive regulation of serine/threonine kinase activity, protein autophosphorylation, and mitotic cell cycle terms, indicating a core theme of signaling pathways that drive cell proliferation. Additional terms on GTPase regulation, mRNA transport, and vesicle trafficking suggest broader intracellular signaling and transport roles that can accompany kinase-driven regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0008284","count":2}]},{"hash":"1123197565079188646","title":"Muscle fiber development and sarcomere assembly","description":"This cluster is dominated by GO terms related to skeletal muscle fiber development and sarcomere organization, supported by a related term on positive regulation of cell size. Additional terms on ubiquitin-mediated protein turnover and circadian rhythm regulation can relate to muscle remodeling and metabolism, but the core signal is muscle structure and development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045793","count":1},{"id":"GO:0009742","count":1},{"id":"GO:1990390","count":1},{"id":"GO:0002467","count":1},{"id":"GO:0048741","count":1}]},{"hash":"1921134244221774928","title":"Developmental regulation and protein homeostasis","description":"This cluster shows enrichment for multicellular development and fertilization, together with protein homeostasis processes like ubiquitin-mediated pathways, regulation of translation initiation, Golgi-ER transport, microtubule dynamics, and DNA replication, suggesting a theme of developmentally coordinated control of protein synthesis, turnover, and trafficking.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0042766","count":2}]},{"hash":"1737910323580571282","title":"Developmental differentiation and Wnt/ERK signaling regulation","description":"The top GO terms cluster around differentiation (stem cell, neuron, uterus development) and regulation of key signaling pathways (positive regulation of canonical Wnt signaling, negative regulation of ERK cascade), along with ubiquitin-dependent proteolysis, suggesting a role in controlling developmental differentiation via signaling pathways. The connection is coherent but broad, so a moderate confidence is appropriate.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0048863","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0070373","count":3},{"id":"GO:0030182","count":2}]},{"hash":"490037096180112743","title":"Ubiquitin-Dependent Proteolysis","description":"This cluster is driven by GO terms related to ubiquitination and proteasomal protein catabolism (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination), suggesting a shared theme of ubiquitin-mediated protein turnover. The other terms appear incidental or unrelated given the small cluster size, so the central connection is weak and primarily centered on ubiquitin signaling rather than a single cohesive pathway.","confidence":"Low","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0009742","count":1},{"id":"GO:1990390","count":1},{"id":"GO:0048294","count":1},{"id":"GO:0045497","count":1}]},{"hash":"1014859469646965807","title":"Ubiquitin-dependent TNF signaling regulation","description":"The cluster centers on ubiquitination-related terms (protein ubiquitination and autoubiquitination) together with both positive and negative regulation of TNF-mediated signaling, suggesting a coherent theme of ubiquitin-mediated control of TNF signaling and related immune regulation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":1},{"id":"GO:0039536","count":1},{"id":"GO:1901253","count":1},{"id":"GO:1903265","count":1},{"id":"GO:0042787","count":1}]},{"hash":"1734987157646309322","title":"Golgi-ER Vesicle Transport","description":"The GO terms cluster around ER-to-Golgi vesicle trafficking, intra-Golgi transport, Golgi ribbon formation, and Golgi-to-vacuole pathways, indicating proteins primarily function in Golgi organization and ER-Golgi trafficking; supportive terms like microtubule severing and ubiquitination reflect related regulatory processes but are not the defining theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0031915","count":2},{"id":"GO:0048280","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0006896","count":2}]},{"hash":"599823053558245588","title":"Unknown","description":"The Top Terms show a mix of developmental signaling (Wnt regulation, heart/uterus development), immune-related processes (adaptive immune response, NK cell regulation, RIG-I signaling), and ubiquitination, with no single dominant function linking all proteins, and there are no edges connecting them, suggesting no cohesive shared function for this cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0016567","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0039536","count":1}]},{"hash":"270885283468007824","title":"Epithelial and sensory organ development","description":"The top GO terms cluster around development and morphogenesis of epithelial tissues and sensory organs (eye photoreceptor differentiation, equilibrioception, brush border assembly, integrin-mediated adhesion, nephric duct morphogenesis, and prostate gland development), suggesting a common theme of tissue organization and sensory/epithelial differentiation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001751","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0050957","count":3},{"id":"GO:0033628","count":3}]},{"hash":"365614117326923597","title":"Unknown","description":"The top GO terms cover a wide and unrelated set of processes (telomere maintenance, vasculogenesis, hormone signaling, lipid metabolism, plant defense signaling, and general regulation) with no clear common function tying the five proteins together. Therefore there is no coherent, representative label beyond Unknown.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":4},{"id":"GO:0032212","count":3},{"id":"GO:2001214","count":3},{"id":"GO:0046475","count":3},{"id":"GO:1904743","count":3}]},{"hash":"1190057226986693312","title":"RNA Modification and Processing","description":"The top GO terms cluster around RNA modification and processing (protein, tRNA, rRNA methylation; rRNA processing; tRNA wobble uridine modification), indicating a core function in RNA modification machinery. Several differentiation and signaling terms appear as possible outliers or misannotations, but the dominant signal supports RNA modification/processing as the main theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006479","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0006364","count":2},{"id":"GO:0002098","count":2}]},{"hash":"1227921369497956753","title":"Developmental Morphogenesis","description":"The top GO terms cluster around tissue formation and shaping across diverse organisms (histoblast morphogenesis, imaginal disc epithelium morphogenesis, outflow tract morphogenesis, ureteric bud development, uterus development), suggesting a shared theme of developmental morphogenesis. Additional terms about calcium signaling and regulation of cell proliferation align with regulatory processes active during morphogenesis, while DNA replication hints at proliferation accompanying development. Overall, the dominant signal points to morphogenesis across tissues.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051481","count":3},{"id":"GO:0060065","count":2},{"id":"GO:0016335","count":2},{"id":"GO:1902832","count":2},{"id":"GO:0006035","count":2}]},{"hash":"258061957719786441","title":"Bacterial envelope biosynthesis and division","description":"The prominent lipopolysaccharide and extracellular polysaccharide biosynthetic terms point to envelope assembly, while chromosome segregation, plasmid partitioning, and cell-cycle-related terms suggest coordination with DNA division in bacteria. Some metabolic terms are present as well, so the label captures a core envelope/division theme but isn\u2019t perfect for all members.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0006859","count":2},{"id":"GO:0018108","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0007059","count":2}]},{"hash":"1106374356256710964","title":"Developmental organogenesis and growth","description":"This cluster's top GO terms cluster around development across multiple organs\u2014heart development, outflow tract morphogenesis, ureteric bud development, Sertoli cell fate, and chondrocyte differentiation\u2014along with a broad \"multicellular organism growth\" term. The shared theme is formation and growth of tissues and organs during development, suggesting a label centered on organogenesis and growth regulation.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0043124","count":4},{"id":"GO:0008050","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0032331","count":3}]},{"hash":"1544592372641617446","title":"Sugar alcohol catabolism and redox metabolism","description":"The proteins are primarily linked to catabolic processes of sugar alcohols (xylitol, sorbitol, ethanol) and related redox activity (NADH oxidation), suggesting a shared function in sugar-alcohol metabolism and redox balance. While a few terms (lignin biosynthesis, response to lipopolysaccharide) are present, they are less aligned with the dominant theme, so the label emphasizes the core metabolic pathway.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0009809","count":4},{"id":"GO:0006116","count":4},{"id":"GO:0051160","count":4},{"id":"GO:0006068","count":4}]},{"hash":"1227713614018489268","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045317","count":2},{"id":"GO:0032773","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0035799","count":2},{"id":"GO:0021957","count":2}]},{"hash":"894500152958095668","title":"Inflammation Regulation and Prostaglandin Biosynthesis","description":"The top GO terms cluster around anti-inflammatory regulation (negative regulation of acute inflammatory response and leukocyte proliferation) and prostaglandin biosynthesis, suggesting these proteins modulate inflammatory signaling and lipid mediator production. Additional GO terms touch on signaling (ERK cascade) and linked differentiation processes, which may reflect broader roles in immune regulation and tissue remodeling. Overall, the shared theme is immune/inflammatory regulation rather than a single enzymatic function.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0070373","count":1},{"id":"GO:0002674","count":1},{"id":"GO:0001516","count":1},{"id":"GO:0014003","count":1}]},{"hash":"1207468306419882864","title":"Mitochondrial translation and calcium-dependent signaling","description":"The cluster center contains clear indicators of mitochondrial protein synthesis (glutaminyl-tRNAGln biosynthesis via transamidation, glutaminyl-tRNA aminoacylation, mitochondrial translation) along with calcium signaling components (calcium release from the sarcoplasmic reticulum, NFAT signaling) and downstream developmental processes (heart development, axonogenesis). This suggests a theme where mitochondrial translation machinery interfaces with calcium-dependent signaling pathways that influence muscle and neural development.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070681","count":1},{"id":"GO:0006425","count":1},{"id":"GO:0032543","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0045921","count":1}]},{"hash":"268135847543066703","title":"UV-C Induced DNA Repair and Replication","description":"The cluster is dominated by GO terms for DNA damage response and repair (nucleotide-excision repair, DNA gap filling, error-free and error-prone translesion synthesis) and for DNA-templated replication, plus a cellular response to UV-C. This points to a cohesive function in repairing UV-induced DNA damage and maintaining replication fidelity.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071494","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0006297","count":2},{"id":"GO:0070987","count":2}]},{"hash":"539628150754269791","title":"Oxidative Burst and Inflammatory Signaling","description":"GO terms are dominated by reactive oxygen species generation and immune-related processes (superoxide production, NADPH oxidase activity, positive regulation of phagocytosis, IL-6 production). Some outliers relate to metabolism or plant-specific processes, but the core pattern suggests a role in oxidative burst and inflammatory signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902001","count":1},{"id":"GO:0071668","count":1},{"id":"GO:0070453","count":1},{"id":"GO:0006783","count":1},{"id":"GO:0050766","count":1}]},{"hash":"330905740234227244","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0042774","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0006620","count":1}]},{"hash":"687618885600395688","title":"Plant gene expression regulation and chromatin dynamics","description":"This cluster centers on core gene expression processes, with proteins linked to translation (GO:0006412) and transcription initiation (GO:0006367), plus RNA surveillance/decay (GO:0070481) and regulatory ncRNA\u2013mediated post-transcriptional silencing. The presence of subtelomeric heterochromatin formation and plant developmental timing (vegetative to reproductive phase) suggests chromatin state modulation in plants. Some terms appear obsolete or cross-species (e.g., Wnt signaling), indicating annotation noise, but the overall theme points to regulation of gene expression and chromatin state in plants. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006367","count":2},{"id":"GO:0070481","count":2},{"id":"GO:0042766","count":1},{"id":"GO:2000096","count":1}]},{"hash":"1113234706522859135","title":"Fungal membrane targeting and secretion","description":"This cluster is dominated by GO terms for SRP-dependent and post-translational targeting of proteins to membranes, pinpointing a role in directing nascent or processed proteins to the membrane as part of the secretory pathway. The presence of a fungal-specific beta-glucan biosynthesis term suggests a fungal context, linking membrane targeting to cell wall production. Some terms also reference negative regulation of stress or apoptotic signaling, indicating regulatory roles under stress. Collectively, the functions point to membrane-targeting/secretion machinery with a fungal specialization.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":5},{"id":"GO:1900035","count":5},{"id":"GO:0000742","count":5},{"id":"GO:0090084","count":5},{"id":"GO:0006616","count":5}]},{"hash":"1723759848301214493","title":"Neural development with autophagy pathways","description":"The terms cluster around brain development (hippocampus development, interneuron precursor migration) and regulation of neuronal apoptosis, complemented by autophagy-related processes (phagophore assembly site localization, phagosome-lysosome fusion) and cellular stress responses, suggesting a neural-development program linked to autophagy and stress signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0090385","count":4},{"id":"GO:0034497","count":4}]},{"hash":"500601218934878591","title":"Neural development and dopaminergic signaling","description":"The top GO terms cluster around nervous system development, substantia nigra development, and dopamine uptake in synaptic transmission, with supporting signals from ERK and Wnt pathways. While there are a few terms related to other organs (hair follicle, salivary gland), the strongest and most cohesive theme is neural development and dopaminergic signaling, suggesting this as a representative label for the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0060501","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0060661","count":2},{"id":"GO:0031069","count":2}]},{"hash":"1031603250187068623","title":"Eukaryotic Translation Initiation","description":"The top GO terms cluster around initiation of translation, including formation of the preinitiation complex, eIF4F assembly, and IRES-dependent/viral translation initiation, which together define a cohesive translation initiation module. Some terms also touch on related RNA processing steps, but the dominant signal is initiation of protein synthesis in eukaryotes. ","confidence":"High","size":5,"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:0097010","count":2},{"id":"GO:0075525","count":2},{"id":"GO:0048025","count":2}]},{"hash":"361740126116228637","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903718","count":3},{"id":"GO:0046900","count":3},{"id":"GO:0044210","count":3},{"id":"GO:0071400","count":3},{"id":"GO:0045984","count":3}]},{"hash":"693254977075415406","title":"Glutamatergic synapse formation and lipid signaling","description":"The top terms cluster around glutamatergic synaptic transmission, brain development, and synapse assembly, pointing to neuronal/synaptic roles. The presence of several lipid remodeling and lipid mediator biosynthesis terms (acyl-chain remodeling of phospholipids, prostaglandin biosynthesis, platelet activating factor biosynthesis) suggests a coordinated role of lipid signaling in synapse formation and function. A minor outlier exists (cellular response to antibiotic) but does not outweigh the main theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007416","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0035965","count":3}]},{"hash":"216748348381355144","title":"Actin dynamics and vesicle trafficking in neurons","description":"The terms show a clear emphasis on actin cytoskeleton remodeling (polymerization, stress fibers, formin-nucleated cables) and regulation of vesicle exocytosis, pointing to actin-driven vesicle trafficking, especially in neuronal contexts. Additional terms on phagosome-lysosome fusion and phagophore localization suggest broader membrane trafficking and autophagy-related processes that commonly accompany cytoskeletal changes; other signals like Rap and Hedgehog are present but less central to the core theme. ","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034379","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0051496","count":2}]},{"hash":"1371340921319029838","title":"Synaptic organization and behavior regulation","description":"The top terms cluster around postsynaptic organization (postsynaptic membrane assembly, PSD95 and gephyrin clustering, synapse maturation) and regulation of synaptic activity, indicating a group of proteins tied to synapse assembly and signaling. The presence of behavior-related terms (social, grooming, vocalization) suggests these synaptic components contribute to neural circuits governing behavior, supporting a cohesive synaptic-function cluster.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097104","count":1},{"id":"GO:2000463","count":1},{"id":"GO:0097119","count":1},{"id":"GO:0035176","count":1},{"id":"GO:0010762","count":1}]},{"hash":"1648169918073210040","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0043086","count":1},{"id":"GO:0034418","count":1},{"id":"GO:0032265","count":1},{"id":"GO:0009116","count":1}]},{"hash":"1690245651159228365","title":"Tissue and Muscle Development","description":"The GO terms show positive regulation of smooth and cardiac muscle differentiation, along with development of brain, uterus, and bladder, pointing to a developmental/differentiation theme across multiple tissues with a noticeable emphasis on muscle differentiation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051152","count":1},{"id":"GO:0060065","count":1},{"id":"GO:0010735","count":1},{"id":"GO:2000727","count":1},{"id":"GO:0071044","count":1}]},{"hash":"1291112912180879448","title":"Phospholipid Remodeling and Lipid Biosynthesis","description":"This cluster is driven by GO terms for acyl-chain remodeling of multiple phospholipids (phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylinositol, phosphatidylserine) and phosphatidic acid biosynthesis, with a smaller signal for lipid storage regulation and mucosal innate immunity. The dominant theme is coordinated phospholipid remodeling and lipid metabolism, suggesting these proteins participate in membrane lipid homeostasis and related biosynthetic steps.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036148","count":2},{"id":"GO:0036151","count":2},{"id":"GO:0050482","count":2},{"id":"GO:0036152","count":2},{"id":"GO:0006654","count":2}]},{"hash":"631770254650743053","title":"Spindle assembly and microtubule nucleation","description":"This cluster is dominated by GO terms related to mitotic spindle assembly and microtubule nucleation, including gamma-tubulin complex localization and nucleation at MTOCs/centrosomes, indicating a core role in spindle organization during cell division. Some developmental or signaling terms appear but are less central to the immediate function suggested by the microtubule/spindle terms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0050731","count":2}]},{"hash":"1658264682688179817","title":"Unknown","description":"The top GO terms span neural signaling (voltage-gated sodium channel clustering, nerve impulse transmission), developmental processes (heart development, melanocyte differentiation, salivary gland boundary specification), KIT signaling and cell adhesion, and immune antigen processing (MHC I). There isn\u2019t a single cohesive function linking these terms, suggesting the cluster reflects multiple distinct roles rather than one clear function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045162","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0032762","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0030318","count":2}]},{"hash":"366145332327073779","title":"DNA replication and genome maintenance","description":"The proteins show GO terms covering replication fork progression, mitotic and chromosomal processes (sister chromatid segregation, maintenance of rDNA, chromosomal condensation), DNA topology changes, and base-excision repair, indicating roles in genome replication and integrity; a few terms are peripheral or outdated but do not override the dominant replication/maintenance theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097046","count":1},{"id":"GO:0009307","count":1},{"id":"GO:0035552","count":1},{"id":"GO:0000819","count":1},{"id":"GO:0043007","count":1}]},{"hash":"1861200896577125160","title":"Mitosis and Centrosome Localization","description":"The top terms are dominated by mitotic processes (cell division, mitotic cell cycle) and centrosome localization, suggesting the cluster centers on mitotic machinery and centrosome-associated regulation. A few reproductive or development terms appear, but they are peripheral to the core theme of mitosis. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0070979","count":1},{"id":"GO:0010229","count":1}]},{"hash":"526848778183573511","title":"Protein Homeostasis and Mitochondrial Quality Control","description":"This cluster centers on maintaining cellular protein balance and mitochondrial health: translation supports protein synthesis, while deubiquitination and negative regulation of proteasomal degradation control protein turnover; mitophagy and negative regulation of mitochondrial fusion reflect mitochondrial quality control; while cadmium response suggests stress adaptation affecting these processes and even endocytosis and transcription modulation may support these pathways. Overall, the theme ties together protein homeostasis with mitochondrial dynamics under stress.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0016579","count":4},{"id":"GO:1901799","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0000423","count":4}]},{"hash":"1957728177264196898","title":"Ubiquitin/SUMO modification in development and immunity","description":"The terms cluster around post-translational modification by ubiquitin and SUMO (sumoylation and ubiquitin-dependent ERAD), alongside diverse development-related processes (brain, skeletal, lens differentiation) and innate immune responses. This suggests a functional theme where ubiquitin/SUMO regulation intersects with development and immune signaling, justifying a label that emphasizes these modifications driving developmental and immune functions.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0016925","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0030433","count":2}]},{"hash":"879882426603027189","title":"Ubiquitin-regulated antiviral signaling","description":"The GO terms cluster around ubiquitination processes (K63-linked, monoubiquitination, autoubiquitination) and proteolytic regulation, plus innate immune signaling (RIG-I pathway) and defense against virus, suggesting a module of proteins that modulate ubiquitin-dependent proteolysis and antiviral signaling, potentially affecting viral material trafficking via microtubule localization.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:2000059","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0046328","count":3},{"id":"GO:0006513","count":3}]},{"hash":"2215620434759109038","title":"Ciliogenesis and Cytoskeletal Regulation","description":"The top GO terms cluster around cilium assembly, microtubule dynamics, and vesicle trafficking, all core to ciliogenesis and cytoskeletal organization. Additional terms for brain development and cell division hint at roles in neural tissues where cilia and cytoskeletal remodeling are crucial, with signals like GTPase activity and tyrosine phosphorylation suggesting regulatory control of these processes. Although the set covers multiple related processes, the strongest cohesive theme is ciliogenesis linked to cytoskeletal and trafficking regulation, with broader implications for neural development. Confidence reflects a plausible, but not exclusive, interpretation given the diversity of terms.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007420","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000398","count":2}]},{"hash":"23943921183603789","title":"Embryonic Development and Organogenesis","description":"The terms point to broad embryonic development and organogenesis across multiple tissues (head, heart, uterus, spleen, muscle, neurons). The common theme is developmental regulation and morphogenesis rather than a single tissue-specific function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000744","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0014807","count":2},{"id":"GO:0021882","count":2}]},{"hash":"1307060286580801080","title":"Organogenesis and tissue development","description":"The Top Terms cluster around development and differentiation across multiple organs (heart, uterus, spleen, loop of Henle/kidney, head formation, somitogenesis), indicating a general organogenesis/organ-tissue differentiation theme rather than a single, specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:2000744","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0014807","count":3},{"id":"GO:0021882","count":3}]},{"hash":"1041341320490761228","title":"DNA replication and repair","description":"This cluster centers on DNA-centric processes, with top GO terms for DNA replication, DNA repair, mitotic cell cycle, and DNA-templated transcription, suggesting a core function in genome maintenance and DNA metabolism. The presence of several metabolic biosynthesis/catabolic terms appears supplementary rather than defining, possibly reflecting annotation overlap or broader cellular contexts.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006574","count":2}]},{"hash":"2268242669965308666","title":"Unknown","description":"The GO terms include embryonic development topics (primitive streak formation, peripheral nervous system neuron development, heart development) alongside diverse metabolic and transcription-regulation processes, with no single dominant function linking all four proteins. This heterogeneity prevents a confident, specific label.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0090009","count":2},{"id":"GO:0048935","count":2},{"id":"GO:0007507","count":2}]},{"hash":"383277973100208796","title":"Angiogenesis and coagulation regulation","description":"The cluster\u2019s GO terms cluster around vascular remodeling and immune-coagulation processes: positive regulation of angiogenesis, vasoconstriction, collagen fibril organization, platelet activation and its negative regulation, plasminogen activation, and complement activation via the lectin pathway, along with endothelial cell survival. These point to coordinated vascular development, extracellular matrix remodeling, and hemostatic/immune regulation, even though a couple terms touch neuronal adhesion. This supports a cohesive label focused on angiogenesis with coagulation and vascular remodeling roles.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0090331","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0031639","count":2}]},{"hash":"1283105327284546934","title":"Multicellular development and organogenesis","description":"This cluster is strongly enriched for developmental processes across tissues, including male gonad development, brain development, camera-type eye development, and general multicellular organism development, with some regulatory involvement via transcription by RNA polymerase II. Minor terms related to metabolism and redox are present but secondary to the overarching theme of organ and organismal development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1975254316423514995","title":"Multi-tissue development and differentiation","description":"The GO terms point to developmental processes across many tissues and lineages (uterus and gonad development, pancreatic cell differentiation, neuronal specification, erythrocyte/megakaryocyte differentiation, inner ear morphogenesis, pharyngeal system development, ureteric bud formation). There is no single shared pathway; instead, the cluster centers on broad embryonic development and lineage commitment across diverse tissues. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0003309","count":2},{"id":"GO:0021902","count":2},{"id":"GO:0045648","count":2}]},{"hash":"2175897965618142233","title":"Diverse Substrate Transmembrane Transport","description":"The most frequent GO terms describe transmembrane transport of various substrates (fructose, bicarbonate, chloride, sulfate, oxalate) and related pH regulation, suggesting a cluster of membrane transporters with broad substrate specificity. Some terms (sporulation, sensory perception of sound, sperm capacitation) are less coherent with transport, but the dominant pattern is membrane transport of diverse solutes.  ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015755","count":2},{"id":"GO:0015701","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0006355","count":2}]},{"hash":"504549331246987773","title":"Unknown","description":"The top GO terms span sensory perception (auditory stimulus, smell, inner ear development) and membrane trafficking (Golgi to ER transport, Golgi vesicle budding), plus lipid metabolism and ion transport, with no single dominant function. Because there is no cohesive biological theme uniting these annotations across the proteins, a specific, representative label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0061092","count":4},{"id":"GO:0010996","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0048194","count":4},{"id":"GO:0033574","count":4}]},{"hash":"1684075639746163106","title":"Germline meiosis and translational regulation","description":"The four proteins cluster around functions in translation regulation (negative regulation of translation, cap-dependent translational initiation, translation) and germline/meiosis processes (meiotic chromosome condensation, spermatocyte division, male germ-line cyst formation). They also touch on cell-cycle control (G1/S transition) and post-transcriptional regulation (mRNA deadenylation), suggesting a coordinated module that ties protein synthesis regulation to meiotic progression in the male germline. This supports a coherent theme despite some broader GO terms, giving a plausible, specific label.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017148","count":2},{"id":"GO:0045665","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0010032","count":2},{"id":"GO:0002191","count":2}]},{"hash":"1178708489041178361","title":"Cytoskeletal remodeling during embryonic development","description":"The GO terms cluster around actin cytoskeleton dynamics and contractile processes in development, including Arp2/3-mediated actin nucleation, GTPase activity regulation, morphogenetic events like neural tube closure and germ-band shortening, and actomyosin-based contraction and muscle/synaptic organization. Together they point to actin-driven morphogenesis and cytoskeletal remodeling during embryogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0001843","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007390","count":1}]},{"hash":"1923814721827962327","title":"Cardiovascular Regulation and Thermogenesis","description":"The GO terms cluster around cardiovascular and metabolic control, including heart development, regulation of blood pressure, renin secretion, and diet-induced thermogenesis, which together point to vascular and energy-homeostasis functions. Some terms (immune cell differentiation, ovarian follicle growth) appear ancillary to this core theme, so the label centers on cardiovascular/metabolic regulation while acknowledging broader regulatory roles.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":1},{"id":"GO:0031649","count":1},{"id":"GO:0045777","count":1},{"id":"GO:0051930","count":1},{"id":"GO:0002305","count":1}]},{"hash":"1850726821121715789","title":"Neuroimmune development and plasticity","description":"This cluster links neural development and synaptic plasticity terms (axonogenesis, long-term potentiation) with innate immune activity (innate immune response, mast cell degranulation, fungal-origin response, phagocytosis recognition) and inflammatory signaling (NF-kappaB). The presence of actin cytoskeleton reorganization and developmental terms (cartilage condensation) suggests a broader developmental context, with cross-talk between nervous system functions and immune processes, supporting a label that combines neurodevelopment with immune signaling.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0043303","count":3},{"id":"GO:0060291","count":3}]},{"hash":"1754700053859850987","title":"Unknown","description":"The top GO terms span neural myelin maintenance, mitochondrial inheritance, nitric oxide biosynthesis, sebaceous gland differentiation, and diverse lipid/sterol and sterol-like metabolic processes, with little overlap in a single coherent biological function. The terms point to varied biological contexts (nervous system, mitochondria, fungal lipid metabolism, skin physiology), suggesting no unifying theme for the protein cluster. ","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0006809","count":4},{"id":"GO:0001949","count":4},{"id":"GO:0006636","count":4}]},{"hash":"1820207187515078424","title":"Fungal sterol and lipid biosynthesis","description":"Most annotated terms point to lipid metabolism and membrane composition in fungi: ergosterol biosynthesis regulation, mannosyl-inositol phosphorylceramide metabolic process, and unsaturated fatty acid biosynthesis. The other terms (myelin maintenance, sebaceous gland differentiation, nitrate assimilation, etc.) appear more generic or cross-species, but the lipid/sterol theme dominates, suggesting a cluster of proteins involved in fungal membrane lipid synthesis and sterol regulation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0006809","count":4},{"id":"GO:0001949","count":4},{"id":"GO:0006636","count":4}]},{"hash":"789354334093602859","title":"Oligodendrocyte and retina vascular development","description":"The four proteins show GO terms clustered around CNS-related development and eye vasculature morphogenesis (oligodendrocyte development and retina vasculature morphogenesis), with additional vascular regulation signals. While other terms touch on immune, bone, and stress responses, the strongest cohesive theme is neural/glial development linked to vasculature, justifying a label focused on oligodendrocyte and retinal vessel development.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904706","count":2},{"id":"GO:0014003","count":1},{"id":"GO:0061299","count":1},{"id":"GO:0070664","count":1},{"id":"GO:0043200","count":1}]},{"hash":"88173730906420029","title":"Organogenesis and Skeletal Development","description":"The GO terms show clear links to skeletal development (bone mineralization, chondrocyte differentiation) and broader organogenesis (lung alveolus development, cardiac muscle proliferation, embryonic digestive tract development). The presence of ribosome biogenesis and transcriptional machinery terms suggests these proteins also participate in general growth and gene expression programs supporting development. Overall, the cluster centers on developmental processes across multiple organs, with a focus on skeletal-related pathways.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":1},{"id":"GO:0032332","count":1},{"id":"GO:0048566","count":1},{"id":"GO:0030501","count":1},{"id":"GO:0042997","count":1}]},{"hash":"1243878178455219210","title":"BMP/TGF-\u03b2 Signaling Regulation","description":"This cluster\u2019s GO terms center on modulation of TGF-\u03b2/BMP signaling, including negative regulation of BMP signaling, cellular response to TGF-\u03b2, and SMAD-related assembly, as well as dephosphorylation processes that can control signaling activity. Although a couple of terms touch on broader signaling contexts ( NF-kappaB, MAPK) or plant-specific processes, the dominant theme is regulation of TGF-\u03b2/BMP signaling pathways. ","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042347","count":3},{"id":"GO:0035970","count":2},{"id":"GO:0000173","count":2},{"id":"GO:0080005","count":2},{"id":"GO:0030514","count":2}]},{"hash":"960439056200013333","title":"Cerebral cortex development and excitatory signaling","description":"Top terms indicate cortical layer formation, neural development, and excitatory synaptic activity (AMPA receptor regulation, excitatory postsynaptic potential). They also include Wnt and ephrin signaling, which are key in neural patterning, and neural tube closure, reinforcing a developmental neural theme. Some terms (mitotic cell cycle, growth hormone signaling, skeletal development) are less specific but may reflect broader developmental contexts. Overall, the cluster centers on cortical formation and maturation of excitatory synapses.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021819","count":3},{"id":"GO:0060396","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0001501","count":2}]},{"hash":"480085259998277719","title":"Neural and Skeletal Development Signaling","description":"Reasoning: The cluster centers on developmental processes across neural and skeletal lineages (forebrain development, axonogenesis, skeletal system development, convergent extension) and includes signaling and cytokine-related terms (growth hormone receptor signaling, calcium signaling, IL-7 response, GM-CSF production), indicating a coordinated developmental signaling network. Thus, Neural and Skeletal Development Signaling fits best.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001501","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0032762","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0070926","count":3}]},{"hash":"1697480132396016387","title":"Vesicle trafficking and exocytosis","description":"The GO terms point to secretory and vesicle trafficking processes across diverse cell types, including immune cell degranulation (neutrophil, eosinophil, NK cell) and neuronal/synaptic vesicle exocytosis, as well as Golgi-to-plasma membrane transport and receptor insertion at the postsynaptic membrane. This common theme suggests a cluster centered on exocytosis and vesicle transport machinery rather than a single cell-type function.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043312","count":1},{"id":"GO:0043308","count":1},{"id":"GO:1900483","count":1},{"id":"GO:0043320","count":1},{"id":"GO:0043001","count":1}]},{"hash":"482846593543618818","title":"Hair follicle morphogenesis and angiogenesis","description":"The top GO terms cluster around development of skin appendages (hair follicle morphogenesis and its proliferation) and formation/branching of blood vessels (angiogenesis), with related signaling (ERK, PI) and transcriptional regulation suggesting coordinated morphogenic processes. This points to a developmental, morphogenesis-focused role tying hair follicle and vascular patterning together.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":3},{"id":"GO:0071338","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0001569","count":3},{"id":"GO:0043524","count":3}]},{"hash":"2287175020157063681","title":"Neural development and immune signaling","description":"The cluster shows strong brain development signals (brain development, cerebral cortex development) along with immune-related processes (B cell proliferation, interleukin-12 production) and signaling regulation (GPCR signaling, receptor internalization), suggesting a link between neural development and immune signaling pathways.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0002322","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0008277","count":4},{"id":"GO:2000438","count":4},{"id":"GO:0021987","count":4}]},{"hash":"371111293258707638","title":"Neural crest and cardiac development","description":"This cluster centers on developmental processes, especially neural crest formation and heart development (neural crest cell development, nervous system development, atrioventricular valve formation, cardiac epithelial-to-mesenchymal transition), with supporting roles for broad transcriptional regulation. The combination suggests coordinated differentiation programs linking neural crest\u2013derived lineages with cardiac morphogenesis.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":1},{"id":"GO:0006384","count":1},{"id":"GO:0051152","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0003190","count":1}]},{"hash":"510057728211028618","title":"Developmental processes","description":"Several GO terms center on development and morphogenesis (skin development; cerebral cortex development; mesodermal cell differentiation; sprouting angiogenesis), suggesting a developmental role for this cluster. A few terms relate to host cell entry and apoptotic regulation, which are outliers given the overall developmental theme and the small cluster size. Overall, the label \u201cDevelopmental processes\u201d best captures the dominant signal, with a Medium confidence due to the presence of conflicting outlier terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":2},{"id":"GO:2001237","count":1},{"id":"GO:0050748","count":1},{"id":"GO:0021987","count":1},{"id":"GO:0046718","count":1}]},{"hash":"469880531803080278","title":"Unknown","description":"The four proteins are annotated with a mix of GO terms across disparate biological areas (spliceosomal complex assembly, dense core granule exocytosis, B cell homeostasis, heart development, hyaluronan metabolism, endosomal transport, synaptic vesicle priming, integrin activation, mitochondrial fission, and actin cytoskeleton regulation). There isn\u2019t a single coherent function or pathway that ties these terms together, and the cluster has no observed interactions (edges/triangles = 0). Therefore, I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":2},{"id":"GO:1990504","count":1},{"id":"GO:0001782","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0030212","count":1}]},{"hash":"1773572095955290709","title":"SNARE-regulated exocytosis","description":"This cluster is dominated by GO terms related to SNARE complex assembly regulation and vesicle fusion/exocytosis (positive/negative regulation of SNARE assembly, presynaptic dense core vesicle exocytosis, and calcium-dependent exocytosis), pointing to a shared role in membrane trafficking and vesicle fusion. Some terms like chlorophyll biosynthesis and stamen formation are outliers, but the exocytosis/vesicle trafficking theme best explains the cluster. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":2},{"id":"GO:0015995","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0048455","count":2}]},{"hash":"128402438130784232","title":"Viral translation initiation and reinitiation","description":"The top terms are dominated by translation initiation and its regulation, including formation of the preinitiation complex, IRES-dependent initiation, and viral termination-reinitiation, indicating a cohesive role in viral translation processes or host factors co-opted by viruses. A few unrelated terms appear but do not override the main signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0046784","count":1}]},{"hash":"406550653024517015","title":"RNA Metabolism and Transcription Regulation","description":"The dominant GO terms relate to RNA processing (tRNA, rRNA maturation, splicing, mRNA decapping) and transcription control (RNA polymerase II termination, P-body assembly, heterochromatin formation), with hints of cell-cycle regulation, indicating proteins involved in RNA metabolism and gene expression control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1990141","count":3},{"id":"GO:0033962","count":3},{"id":"GO:0009737","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0000290","count":3}]},{"hash":"1843590266742081774","title":"Antiviral Innate and Adaptive Immune Signaling","description":"The top GO terms center on antiviral defense (defense response to virus, innate immune response, TNF signaling) and lymphocyte regulation (T follicular helper differentiation, T cell proliferation, B cell homeostasis), indicating both innate and adaptive immune processes. Ubiquitin-dependent proteolysis and actin ubiquitination suggest regulation of immune signaling via protein turnover and cytoskeleton dynamics. Together these terms define a cohesive immune-activation cluster spanning antiviral defense and lymphocyte function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0001782","count":1},{"id":"GO:0000715","count":1}]},{"hash":"1097064597323764343","title":"Ribosome biogenesis and translation with cell-cycle regulation","description":"This cluster centers on translation and ribosome biogenesis (GO:0006412, GO:0042254), suggesting involvement in the protein synthesis machinery. Additional terms indicate links to cell-cycle control and proteostasis (e.g., regulation of ubiquitin pathways, p53 signaling), implying these proteins couple ribosome production and translation with proliferation checks and stress responses such as actinomycin D exposure.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0071158","count":1},{"id":"GO:1904667","count":1},{"id":"GO:2000059","count":1}]},{"hash":"1678267151111235694","title":"Ubiquitin-Dependent Degradation and Signaling","description":"The cluster is dominated by ubiquitin-related degradation processes (ERAD, K48- and K63-linked ubiquitination) and general protein catabolism, with accompanying GO terms tied to development and signaling (RIG-I, TNF, Wnt, skin development). This suggests proteins involved in ubiquitin-mediated protein turnover that also regulate developmental and immune signaling pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0039536","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0046621","count":2}]},{"hash":"619108883222721683","title":"Ubiquitin-Dependent Protein Catabolism","description":"The top GO terms show a clear emphasis on ubiquitin-related processes (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination), which suggests the cluster may revolve around ubiquitin-mediated protein turnover. However, the presence of diverse terms related to development and immune functions indicates limited overall functional coherence, making the label tentative.","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0035186","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0009742","count":1},{"id":"GO:1990390","count":1}]},{"hash":"3556983561017904","title":"Ubiquitin-Dependent Proteolysis and Stress Signaling","description":"The top GO terms point to ubiquitin-mediated protein degradation (N-end rule pathway, K11-linked ubiquitination) and stress-related signaling, including JNK cascade and cellular responses to IL-1. Additional terms about mitotic exit and DNA repair suggest the cluster centers on ubiquitin-regulated control of stress responses that intersect with cell cycle and genome maintenance. Overall, a cohesive theme of ubiquitin-dependent regulation of stress signaling and cell cycle/dna repair processes fits these terms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071596","count":3},{"id":"GO:0070979","count":3},{"id":"GO:0071347","count":3},{"id":"GO:0070423","count":3},{"id":"GO:0043524","count":3}]},{"hash":"57172030197726716","title":"Ubiquitin-Dependent Protein Degradation","description":"Top terms are dominated by ubiquitination and ubiquitin-dependent protein catabolic processes (GO:0070936, GO:0042787, GO:0051865), including related ERAD pathways; this suggests the proteins primarily participate in tagging and targeting other proteins for degradation. Some terms are tangential (Wnt receptor catabolic process, peroxisome matrix import, dosage compensation), but the central theme remains ubiquitin-mediated proteolysis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070936","count":1},{"id":"GO:0038018","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0016558","count":1},{"id":"GO:0030433","count":1}]},{"hash":"546190026123253790","title":"Ubiquitin-regulated TNF and antiviral signaling","description":"The cluster is enriched for ubiquitination-related processes (protein ubiquitination, autoubiquitination, ubiquitin-dependent protein catabolic process) and TNF signaling, including both positive and negative regulation, as well as negative regulation of RIG-I\u2013mediated antiviral signaling and intracellular transport of viral material. This points to a cohesive theme where ubiquitin-based modulation controls inflammatory and innate immune signaling, with some outlier terms likely reflecting broader gene functions. High","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0039536","count":2},{"id":"GO:1901253","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0042787","count":2}]},{"hash":"466530311008648799","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around embryonic development and organogenesis across multiple tissues\u2014placental and trophoblast differentiation, endocrine system development, pancreas development, cartilage morphogenesis, heart-related EMT, left-right patterning, head development, and kidney morphogenesis\u2014indicating a shared theme of developmental differentiation and morphogenesis rather than a single pathway. This suggests the proteins collectively participate in broad developmental programs rather than a specific signaling route.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0035270","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0060536","count":1}]},{"hash":"2273424990002484828","title":"Central Energy Metabolism","description":"The top GO terms are dominated by core metabolic pathways: glycolytic process, tricarboxylic acid cycle, and aerobic electron transport chain, pointing to central energy production. Obvious stress-related terms (response to xenobiotic stimulus, response to fungicide) are present but less dominant, while a couple of outliers (cerebral cortex development, guanine metabolism) likely reflect annotation noise in a small cluster. Overall, the shared theme is energy metabolism. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0070995","count":2}]},{"hash":"2144801269636629966","title":"Hematopoiesis and vascular development","description":"The GO terms cluster around differentiation of blood cells (erythrocytes, megakaryocytes, granulocytes), blood circulation, leukocyte adhesion to endothelium, and vessel morphogenesis, with apoptosis linked to vascular remodeling. These collectively indicate a core theme of hematopoiesis and vascular development, with a few less-connected remodeling terms (epithelial proliferation, mammary gland involution) present but not central.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050673","count":3},{"id":"GO:1904996","count":3},{"id":"GO:0097152","count":3},{"id":"GO:0045653","count":3},{"id":"GO:0030218","count":3}]},{"hash":"739185430660046851","title":"Energy metabolism and proton transport","description":"The top GO terms cluster around proton transmembrane transport and NADPH regeneration, with several specific catabolic processes for substrates like methane, methanol, galactitol, alanine, and glycine betaine. This pattern points to a broad role in energy metabolism and redox balance rather than a single, well-defined pathway, with notable involvement in membrane-associated proton transport. Therefore the label reflects both energy generation and redox maintenance suggested by the data.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0046188","count":1},{"id":"GO:0008203","count":1},{"id":"GO:0015945","count":1},{"id":"GO:0055114","count":1}]},{"hash":"868826671793691982","title":"Synapse Assembly and Neurotransmission","description":"The top GO terms point to synaptic organization and function, including synapse assembly, presynaptic membrane assembly, gephyrin clustering at the postsynaptic density, and positive regulation of glutamatergic transmission. While a couple of terms (cell shape regulation, aging) are peripheral, the dominant signal is synaptic formation and signaling, suggesting these proteins function in synapse structure and neurotransmission.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0014807","count":1},{"id":"GO:0032331","count":1},{"id":"GO:0097116","count":1}]},{"hash":"218265287350112817","title":"Excitatory Synaptic Transmission and PSD Assembly","description":"Top terms indicate a postsynaptic module centered on excitatory signaling and density organization, including positive regulation of glutamatergic transmission, AMPA receptor activity, and postsynaptic membrane assembly; gephyrin and PSD-95 clustering further support a focus on postsynaptic density organization, with potential retrograde signaling. This suggests a cohesive functional theme around excitatory synapses and their scaffolding complexes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0097116","count":2},{"id":"GO:0051968","count":2},{"id":"GO:2000969","count":1},{"id":"GO:0090394","count":1}]},{"hash":"796315089449955370","title":"Organ morphogenesis and neural signaling","description":"This cluster features GO terms tied to tissue and organ development across multiple systems (heart, salivary gland, nephric duct, compound eye) as well as neural connectivity and signaling processes (axonogenesis, nerve impulse transmission, trans-synaptic signaling). The presence of collagen fibril organization also fits roles in tissue morphogenesis. Together, these terms point to developmental programs governing organ formation and neural wiring, rather than a single, narrow function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0007432","count":3},{"id":"GO:0072178","count":3},{"id":"GO:0050772","count":3}]},{"hash":"380128958541667745","title":"RNA and Protein Methylation","description":"The top terms cluster around methylation activities: rRNA modification, peptidyl-arginine methylation to asymmetrical-dimethyl arginine, N-terminal peptidyl-alanine trimethylation, and even DNA methylation on adenine. This suggests a shared functional theme of methylation-related regulation at RNA, protein, and DNA levels. However, several unrelated terms (chlorophyll and lipid biosynthesis, nodulation, tellurium response) dilute the signal, so the connection is present but not strong. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000154","count":2},{"id":"GO:0036068","count":2},{"id":"GO:0010189","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0006596","count":2}]},{"hash":"571434461289871633","title":"Organogenesis and Developmental Regulation","description":"This cluster centers on developmental processes across multiple tissues\u2014gonadal development, heart development, ureteric bud formation, and related organogenesis\u2014coupled with transcriptional control and signals that influence cell survival. The combination of growth, organ development, and transcription-related GO terms points to proteins involved in developmental regulation rather than a single pathway, justifying a label focused on organogenesis and development.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0060528","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1525092907732603012","title":"Unknown","description":"The GO terms are highly heterogeneous, including immune-related (antigen processing via MHC II, LPS response), developmental (retinal pigment epithelium and male gonad development), stress responses, apoptosis, and metabolism, with no clear unifying function for the cluster.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045476","count":1},{"id":"GO:0019886","count":1},{"id":"GO:0032496","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0030163","count":1}]},{"hash":"1040005712726223444","title":"Ribosome Biogenesis and Translation","description":"The top GO terms point to ribosome production and protein synthesis: translation (GO:0006412), ribosomal small subunit assembly (GO:0000028), and ribosome biogenesis (GO:0042254), with an older rRNA export term also fitting ribosome maturation. Together these indicate a coherent theme of ribosome assembly and function, suggesting these proteins are ribosomal components or assembly factors.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000028","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0042254","count":1}]},{"hash":"826531662841803310","title":"Unknown","description":"The GO terms span heart and brain development as well as adipose tissue development, alongside multiple energy metabolism processes (ketone/short-chain fatty acid catabolism) and signals related to insulin secretion. With only three proteins and no consistent enrichment signal, there isn't a single, cohesive function that clearly ties the cluster together. Therefore a specific, confident label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014823","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0019552","count":1},{"id":"GO:0042594","count":1},{"id":"GO:0046459","count":1}]},{"hash":"2286835580171958054","title":"Transcription and ribosome biogenesis factors","description":"The GO terms include RNA polymerase I/II/III transcription, RNA-templated transcription, transcription elongation, and ribosome biogenesis, suggesting a core of transcription machinery and ribosome assembly proteins. Some terms (proboscis development, Wnt signaling, and protein localization to the cell surface) appear as outliers, but the dominant theme is nucleic acid synthesis and ribosome biogenesis. Given the small cluster size with no observed edges, this label reflects the main functional signal without overreach.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0006386","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0042797","count":1},{"id":"GO:0006360","count":1}]},{"hash":"1371343681205841159","title":"Telomere maintenance and telomerase regulation","description":"The top GO terms cluster around telomere maintenance via telomerase and telomerase RNA localization to Cajal bodies, plus protein localization to telomeres, suggesting a shared role in telomere biology. Some immune and virion-related terms appear, likely noise, but the telomere/telomerase signals provide a cohesive theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":3},{"id":"GO:0032212","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0002842","count":3},{"id":"GO:0002368","count":3}]},{"hash":"884692898727731652","title":"T cell receptor\u2013driven actin remodeling","description":"The top GO terms emphasize T cell receptor signaling and actin cytoskeleton dynamics (podosome and ruffle assembly, actin polymerization, GTPase regulation) plus adhesion and receptor trafficking. This suggests a coherent module where immune signaling is closely tied to actin remodeling and membrane spreading.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0097178","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0007264","count":3}]},{"hash":"1297669075308344106","title":"Endocytosis and actin-driven motility","description":"The terms cluster around endocytic processes (endocytic recycling, pinocytosis), membrane remodeling during protrusions (podosome assembly, lamellipodium morphogenesis), and regulation of cell polarity and shape, with additional sporulation-related membrane formation. This suggests a cohesive theme of membrane trafficking coupled to cytoskeletal dynamics driving cell movement and organization.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1990126","count":3},{"id":"GO:0032120","count":3},{"id":"GO:0071800","count":3},{"id":"GO:0032005","count":3},{"id":"GO:0022617","count":3}]},{"hash":"1645472222220632252","title":"Unknown","description":"The GO terms are diverse, including telomerase/telomere maintenance, immune signaling, virion assembly and toxin transport, apoptosis regulation, and protein localization. There isn't a clear, unifying function linking the three proteins; as a result, there isn't a confident single-label description to represent the cluster.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071866","count":3},{"id":"GO:0032212","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0002842","count":3},{"id":"GO:0002368","count":3}]},{"hash":"762993347316443178","title":"Chromatin remodeling and DNA replication","description":"This cluster\u2019s terms cluster around nuclear DNA maintenance: chromatin remodeling, heterochromatin formation, DNA replication, and transcription initiation regulation, with several entries pointing to nucleosome dynamics and chromatin state influencing genome replication and transcription in the nucleus. While a few terms are obsolete, the overall theme is cohesive around chromatin organization and DNA replication in the nucleus.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0006346","count":3},{"id":"GO:0036292","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0045898","count":3}]},{"hash":"2248145453819665794","title":"Embryonic development and organogenesis","description":"The GO terms emphasize differentiation and morphogenesis across various embryonic tissues (placenta/trophoblast, endocrine/pancreatic development, cartilage, and heart-associated EMT). While some basic gene expression processes appear, the dominant theme is developmental programs shaping organs during embryogenesis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0035270","count":2}]},{"hash":"624574879240852341","title":"G2/M cell cycle regulation","description":"Dominant GO term among the cluster is positive regulation of G2/M transition of mitotic cell cycle, suggesting a mitotic entry control role. Supporting signals include related chromatin remodeling and microtubule-associated processes (nucleosome mobilization, tubulin deacetylation) that commonly accompany mitosis. However, the small cluster size, lack of edges, and presence of several obsolete terms reduce clarity, so the label is plausible but not highly confident.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":1},{"id":"GO:0070562","count":1},{"id":"GO:0010971","count":1},{"id":"GO:1905524","count":1},{"id":"GO:0021915","count":1}]},{"hash":"886577266077898371","title":"Ubiquitin-Dependent Protein Turnover","description":"The top GO terms cluster around ubiquitination and proteasomal degradation (K33-linked ubiquitination and ubiquitin-dependent protein catabolic process), suggesting the proteins may function in tagging and degrading substrates. Some muscle-related terms could reflect downstream roles of ubiquitin regulation in muscle biology, while brassinosteroid signaling and circadian rhythm terms appear as less central associations. Overall, ubiquitin-mediated protein turnover best explains the shared functional theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009742","count":2},{"id":"GO:1990390","count":2},{"id":"GO:0002467","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0070294","count":2}]},{"hash":"1811458752207976073","title":"Unknown","description":"The listed GO terms span immune response, signaling pathway regulation, pigmentation, hormone response, cardiac electrophysiology, neuronal plasticity, ion transport, and metabolic sensing, with no obvious unifying function. This diversity suggests there isn\u2019t a single coherent biological theme linking the proteins in this cluster. Therefore, I cannot assign a specific, representative label beyond Unknown, with no confidence in a shared function.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0090099","count":2},{"id":"GO:0051876","count":2},{"id":"GO:0033574","count":2}]},{"hash":"1385084387228043255","title":"Glycolysis and glucose-energy signaling","description":"Based on the GO terms, the cluster is dominated by glycolytic energy metabolism (canonical glycolysis, pyruvate/ATP biosynthesis) and glucose-related signaling (response to glucose, insulin stimulus, cAMP), with ancillary stress responses (heat, hypoxia) and seed maturation context, pointing to a glycolysis-centered metabolic and signaling module.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":1},{"id":"GO:0010431","count":1},{"id":"GO:0032869","count":1},{"id":"GO:0009749","count":1},{"id":"GO:0051591","count":1}]},{"hash":"1207114105935269326","title":"Wnt-driven developmental differentiation","description":"The GO terms center on the Wnt signaling pathway and differentiation processes across multiple lineages (bone/osteoblast, monocytes, CNS), with additional references to transcriptional regulation. The common thread is developmental signaling guiding lineage specification, anchored by Wnt activity.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002528","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0043392","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0032091","count":1}]},{"hash":"1531897797533694010","title":"Developmental and ciliary regulators","description":"Top GO terms suggest roles in organismal development (brain development, multicellular organism development, male gonad development) and ciliogenesis (cilium assembly), pointing to proteins involved in developmental signaling and ciliary function. While there are also terms related to ER-associated degradation and mitochondria-nucleus signaling, these are less cohesive with the dominant development/ciliary theme. Given the limited connections among the three proteins and the clear emphasis on developmental and ciliary processes, this label best captures the cluster\u2019s likely function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0031930","count":2}]},{"hash":"106082591026731985","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019358","count":1},{"id":"GO:0034354","count":1},{"id":"GO:0034213","count":1},{"id":"GO:0032265","count":1},{"id":"GO:0007595","count":1}]},{"hash":"1344435019388200857","title":"Nucleotide metabolism and RNA editing","description":"The top GO terms are dominated by nucleotide metabolism and processing (UMP salvage; uridine, cytidine, and cytosine metabolic processes; deoxycytidine catabolic; cytidine deamination; riboflavin and ribonucleotide-related biosynthesis), with an additional signal for tRNA wobble A-to-I editing, suggesting RNA modification. A few terms on antibiotic response and exocytosis appear less directly connected, but the core theme centers on nucleic acid metabolism and RNA processing. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":1},{"id":"GO:0002100","count":1},{"id":"GO:0006217","count":1},{"id":"GO:0009972","count":1},{"id":"GO:0044206","count":1}]},{"hash":"1764788499458365774","title":"DNA Damage Response and Flavin Cofactor Metabolism","description":"This cluster combines ionizing radiation response and DNA repair signals with flavin cofactor biosynthesis (Riboflavin/FAD/FMN) and redox-related processes (NAD(P)H oxidase activity), plus ER localization/UPR terms, suggesting a loose theme of DNA damage response intertwined with flavin-dependent redox metabolism and general cellular stress; the small, term-diverse set yields only a partial, not tight, connection.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010212","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009231","count":1},{"id":"GO:0033864","count":1}]},{"hash":"942776892783462601","title":"Membrane trafficking and exocytosis","description":"The top GO terms center on Golgi-to-plasma membrane transport, protein targeting to membranes, and palmitoylation, all pointing to the secretory pathway and membrane trafficking, including calcium-dependent exocytosis. A few terms like learning and photoreceptor development appear but are likely incidental. Overall, the cluster reflects membrane trafficking and protein localization to membranes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":2},{"id":"GO:0018230","count":1},{"id":"GO:0006612","count":1},{"id":"GO:0045956","count":1},{"id":"GO:0007612","count":1}]},{"hash":"630418805665799163","title":"Nucleobase and Purine Transport","description":"The top GO terms are dominated by transport of nucleobases and purine derivatives (urate, guanine, xanthine, uracil, adenine, hypoxanthine) across the plasma membrane, suggesting these proteins function as membrane transporters for these compounds. A couple of chromatin-related terms appear but do not fit the core theme and are likely annotation noise. Overall, the cluster appears to represent nucleobase/purine uptake across the membrane.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015747","count":1},{"id":"GO:0098710","count":1},{"id":"GO:0042906","count":1},{"id":"GO:0098721","count":1},{"id":"GO:0098702","count":1}]},{"hash":"1314323957234756344","title":"Multicellular development and ciliogenesis","description":"This cluster shows enrichment for developmental processes such as multicellular organism development, brain development, and gonad development, along with cilium assembly, suggesting a role in coordinating tissue development and ciliary function. Additional terms related to intracellular transport, cytoskeletal dynamics, and signaling support the idea of a cohesive developmental program that relies on proper trafficking and microtubule regulation. Overall, the themes point to development and ciliogenesis as the core shared function among these proteins.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0031930","count":2}]},{"hash":"1671483522940386307","title":"Neurotransmission and behavioral responses","description":"This cluster is driven by neural signaling terms: acetylcholine receptor signaling, GABA signaling, and behavioral responses to nicotine and cocaine, indicating a focus on synaptic communication and neuromodulation that shapes behavior. While a few terms touch on other processes (sound detection, muscle contraction, amyloid-beta regulation), the strongest, recurring theme centers on neurotransmission and neurobehavioral responses.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0003428","count":1},{"id":"GO:2000344","count":1},{"id":"GO:0035095","count":1},{"id":"GO:0095500","count":1}]}]